Publications 2022

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1034 publications

PubMed DOI Crossref
Lipoic Acid Conjugated Boron Hybrids Enhance Wound Healing and Antimicrobial Processes.
Türkez H, Yıldırım ÖÇ, Öner S, ..., Yapça ÖE, Mardinoğlu A
Pharmaceutics 15 (1) - [2022-12-31; online 2022-12-31]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Label-Free Estimation of Sarcomere Orientation from Brightfield Microscopy Images of Induced Pluripotent Stem Cell Derived Cardiomyocyte Nuclei
Ahola ", Belay B, Wählby C, Hyttinen" J
- - (-) - [2022-12-31; online 2022-12-31]
PubMed DOI Crossref
Imaging of the Glucose-Dependent Insulinotropic Polypeptide Receptor Using a Novel Radiolabeled Peptide Rationally Designed Based on Endogenous GIP and Synthetic Exendin-4 Sequences.
Velikyan I, Bossart M, Haack T, ..., Wagner M, Eriksson O
Pharmaceuticals (Basel, Switzerland) 16 (1) - [2022-12-31; online 2022-12-31]
Olof Eriksson SciLifeLab Fellow
DOI Crossref
Insights into mammalian TE diversity via the curation of 248 mammalian genome assemblies
Osmanski AB, Paulat NS, Korstian J, ..., Karlsson EK, Ray DA
- - (-) - [2022-12-30; online 2022-12-30]
PubMed DOI Crossref
Ancient multiplicity in cyclic nucleotide-gated (CNG) cation channel repertoire was reduced in the ancestor of Olfactores before re-expansion by whole genome duplications in vertebrates.
Lagman D, Haines HJ, Abalo XM, Larhammar D
PLoS ONE 17 (12) e0279548 [2022-12-30; online 2022-12-30]
PubMed DOI Crossref
Occurrence of late-apoptotic symptoms in porcine preimplantation embryos upon exposure of oocytes to perfluoroalkyl substances (PFASs) under in vitro meiotic maturation.
Leclercq A, Ranefall P, Sjunnesson YCB, Hallberg I
PLoS ONE 17 (12) e0279551 [2022-12-28; online 2022-12-28]
PubMed DOI Crossref
Finding haplotypic signatures in proteins.
Vašíček J, Skiadopoulou D, Kuznetsova KG, ..., Käll L, Vaudel M
Gigascience 12 (-) - [2022-12-28; online 2023-10-31]
DOI Crossref
ISG15-modification of the Arp2/3 complex restricts pathogen spread
Zhang Y, Ripley B, Ouyang W, ..., Guerra S, Radoshevich L
- - (-) - [2022-12-27; online 2022-12-27]
PubMed DOI Crossref
Identifying Novel Inhibitors for Hepatic Organic Anion Transporting Polypeptides by Machine Learning-Based Virtual Screening.
Tuerkova A, Bongers BJ, Norinder U, ..., van Westen GJP, Zdrazil B
J Chem Inf Model 62 (24) 6323-6335 [2022-12-26; online 2022-03-11]
PubMed DOI Crossref
Obesity-Associated Neurodegeneration Pattern Mimics Alzheimer's Disease in an Observational Cohort Study.
Morys F, Potvin O, Zeighami Y, ..., Dagher A, Alzheimer’s Disease Neuroimaging Initiative
J. Alzheimers Dis. 91 (3) 1059-1071 [2022-12-25; online 2022-12-25]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Allosteric Modulators of Dopamine D2 Receptors for Fine-Tuning of Dopaminergic Neurotransmission in CNS Diseases: Overview, Pharmacology, Structural Aspects and Synthesis.
Kaczor AA, Wróbel TM, Bartuzi D
Molecules 28 (1) - [2022-12-25; online 2022-12-25]
DOI Crossref
mapquik: Efficient low-divergence mapping of long reads in minimizer space
Ekim B, Sahlin K, Medvedev P, Berger B, Chikhi R
- - (-) - [2022-12-23; online 2022-12-23]
PubMed DOI Crossref
Circulating Amino Acids and Risk of Peripheral Artery Disease in the PREDIMED Trial.
Razquin C, Ruiz-Canela M, Toledo E, ..., Hu FB, Martínez-González MA
Int J Mol Sci 24 (1) - [2022-12-23; online 2022-12-23]
Clemens Wittenbecher DDLS Fellow
DOI Crossref
C-ToMExO: Learning Cancer Progression Dynamics from Clonal Composition of Tumors
Neyshabouri MM, Dimitrakopoulou S, Lagergren J
- - (-) - [2022-12-23; online 2022-12-23]
PubMed DOI Crossref
Surface protein profiling of prostate-derived extracellular vesicles by mass spectrometry and proximity assays.
Manouchehri Doulabi E, Fredolini C, Gallini R, ..., Bergquist J, Kamali-Moghaddam M
Commun Biol 5 (1) 1402 [2022-12-22; online 2022-12-22]
PubMed DOI Crossref
STK4 protein expression pattern follows different trends in endometrioid and serous endometrial adenocarcinoma upon tumor progression.
Govorov I, Attarha S, Kovalevska L, ..., Kashuba E, Mints M
Sci Rep 12 (1) 22154 [2022-12-22; online 2022-12-22]
PubMed DOI Crossref
Role of ZNF143 and Its Association with Gene Expression Patterns, Noncoding Mutations, and the Immune System in Human Breast Cancer.
Saddeek S, Almassabi R, Mobashir M
Life (Basel) 13 (1) - [2022-12-22; online 2022-12-22]
PubMed DOI Crossref
Modulating glycosphingolipid metabolism and autophagy improves outcomes in pre-clinical models of myeloma bone disease.
Leng H, Zhang H, Li L, ..., Simon AK, Horwood NJ
Nat Commun 13 (1) 7868 [2022-12-22; online 2022-12-22]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Evolutionary trade-offs associated with copy number variations in resistance alleles in Culex pipiens mosquitoes.
Milesi P, Claret JL, Unal S, Weill M, Labbé P
Parasit Vectors 15 (1) 484 [2022-12-22; online 2022-12-22]
PubMed DOI Crossref
A brain atlas of synapse protein lifetime across the mouse lifespan.
Bulovaite E, Qiu Z, Kratschke M, ..., Fransén E, Grant SGN
Neuron 110 (24) 4057-4073.e8 [2022-12-21; online 2022-10-05]
DOI Crossref
Ghost admixture in eastern gorillas
Pawar H, Rymbekova A, Cuadros S, ..., Marques-Bonet T, Kuhlwilm M
- - (-) - [2022-12-19; online 2022-12-19]
DOI Crossref
Genome-wide association study reveals loci with sex-specific effects on plasma bile acids
Landini A, Ghasemi-Semeskandeh D, Johansson Å, ..., Wilson JF, Klarić L
- - (-) - [2022-12-19; online 2022-12-19]
PubMed DOI Crossref
An Approach for Systems-Level Understanding of Prostate Cancer from High-Throughput Data Integration to Pathway Modeling and Simulation.
Mobashir M, Turunen SP, Izhari MA, ..., Helleday T, Lehti K
Cells 11 (24) - [2022-12-19; online 2022-12-19]
PubMed DOI Crossref
The spectrum of tuberculosis described as differential DNA methylation patterns in alveolar macrophages and alveolar T cells.
Pehrson I, Sayyab S, Das J, ..., Ugarte-Gil C, Lerm M
Clin Epigenetics 14 (1) 175 [2022-12-17; online 2022-12-17]
PubMed DOI Crossref
A conserved MTMR lipid phosphatase increasingly suppresses autophagy in brain neurons during aging.
Kovács T, Szinyákovics J, Billes V, ..., Maglóczky Z, Vellai T
Sci Rep 12 (1) 21817 [2022-12-17; online 2022-12-17]
PubMed DOI Crossref
Membrane Fusion Mediated by Non-covalent Binding of Re-engineered Cholera Toxin Assemblies to Glycolipids.
Wehrum S, Siukstaite L, Williamson DJ, ..., Römer W, Turnbull WB
ACS Synth. Biol. 11 (12) 3929-3938 [2022-12-16; online 2022-11-11]
PubMed DOI Crossref
Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma.
Borgenvik A, Holmberg KO, Bolin S, ..., Weishaupt H, Swartling FJ
Cancer Res. 82 (24) 4586-4603 [2022-12-16; online 2022-10-12]
PubMed DOI Crossref
Systematic comparison of modeling fidelity levels and parameter inference settings applied to negative feedback gene regulation
Coulier A, Singh P, Sturrock M, Hellander A
PLoS Comput Biol 18 (12) e1010683 [2022-12-15; online 2022-12-15]
Prashant Singh SciLifeLab Fellow
PubMed DOI Crossref
Strobealign: flexible seed size enables ultra-fast and accurate read alignment.
Sahlin K
Genome Biol. 23 (1) 260 [2022-12-15; online 2022-12-15]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
Linking Individual Differences in Personalized Functional Network Topography to Psychopathology in Youth.
Cui Z, Pines AR, Larsen B, ..., Fan Y, Satterthwaite TD
Biol. Psychiatry 92 (12) 973-983 [2022-12-15; online 2022-05-18]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Intrinsic Molecular Subtypes of Metastatic Castration-Resistant Prostate Cancer.
Feng E, Rydzewski NR, Zhang M, ..., Sjöström M, Zhao SG
Clin. Cancer Res. 28 (24) 5396-5404 [2022-12-15; online 2022-10-20]
Arian Lundberg DDLS Fellow
PubMed DOI Crossref
Influenza Virus Membrane Fusion Is Promoted by the Endosome-Resident Phospholipid Bis(monoacylglycero)phosphate.
Mannsverk S, Villamil Giraldo AM, Kasson PM
J Phys Chem B 126 (49) 10445-10451 [2022-12-15; online 2022-12-05]
DOI Crossref
Expression of substance P, NPY and their Receptors Is Altered in Major Depression
Barde S, Aguila J, Zhong W, ..., Hedlund E, Hökfelt T
- - (-) - [2022-12-15; online 2022-12-15]
PubMed DOI Crossref
Estimating diagnostic uncertainty in artificial intelligence assisted pathology using conformal prediction.
Olsson H, Kartasalo K, Mulliqi N, ..., Spjuth O, Eklund M
Nat Commun 13 (1) 7761 [2022-12-15; online 2022-12-15]
DDLS Fellow Kimmo Kartasalo
DOI Crossref
Deciphering the determinants of recombinant protein yield across the human secretome
Masson HO, Kuo CC, Malm M, ..., Rockberg J, Lewis NE
- - (-) - [2022-12-14; online 2022-12-14]
PubMed DOI Crossref
Biophysical characterization of calcium-binding and modulatory-domain dynamics in a pentameric ligand-gated ion channel.
Lycksell M, Rovšnik U, Hanke A, ..., Howard RJ, Lindahl E
Proc. Natl. Acad. Sci. U.S.A. 119 (50) e2210669119 [2022-12-13; online 2022-12-08]
PubMed DOI Crossref
B cell expansion hinders the stroma-epithelium regenerative cross talk during mucosal healing.
Frede A, Czarnewski P, Monasterio G, ..., Das S, Villablanca EJ
Immunity 55 (12) 2336-2351.e12 [2022-12-13; online 2022-12-02]
DOI Crossref
dgram2dmap: Extraction, visualisation and formatting of distance constraints from AlphaFold distograms
Wallner B, Amunts A, Naschberger A, Nystedt B, Mirabello C
- - (-) - [2022-12-12; online 2022-12-12]
PubMed DOI Crossref
Markers associated with genomic instability, immunogenicity and immune therapy responsiveness in Metaplastic carcinoma of the breast: Expression of γH2AX, pRPA2, P53, PD-L1 and tumor infiltrating lymphocytes in 76 cases.
Voutilainen S, Heikkilä P, Bartkova J, ..., Bartek J, Mattson J
BMC Cancer 22 (1) 1298 [2022-12-12; online 2022-12-12]
DOI Crossref
Evaluation of AlphaFold-Multimer prediction on multi-chain protein complexes
Zhu W, Shenoy A, Kundrotas P, Elofsson A
- - (-) - [2022-12-12; online 2022-12-12]
DOI Crossref
Points2Regions: Fast, interactive clustering of imaging-based spatial transcriptomics data
Andersson A, Behanova A, Avenel C, ..., Malmberg F, Wählby C
- - (-) - [2022-12-10; online 2022-12-10]
DOI Crossref
Therapeutic opportunity of phosphodiesterase 3A modulators in myxoid liposarcomas
Toivanen K, Kilpinen S, Ojala K, ..., Böhling T, Sihto H
- - (-) - [2022-12-09; online 2022-12-09]
PubMed DOI Crossref
Manipulation of topoisomerase expression inhibits cell division but not growth and reveals a distinctive promoter structure in Synechocystis.
Behle A, Dietsch M, Goldschmidt L, ..., Axmann IM, Machné R
Nucleic Acids Res. 50 (22) 12790-12808 [2022-12-09; online 2022-12-20]
PubMed DOI Crossref
Allosteric rescue of catalytically impaired ATP phosphoribosyltransferase variants links protein dynamics to active-site electrostatic preorganisation.
Fisher G, Corbella M, Alphey MS, ..., Kamerlin SCL, da Silva RG
Nat Commun 13 (1) 7607 [2022-12-09; online 2022-12-09]
PubMed DOI Crossref
Structure of the mitoribosomal small subunit with streptomycin reveals Fe-S clusters and physiological molecules.
Itoh Y, Singh V, Khawaja A, ..., Rorbach J, Amunts A
Elife 11 (-) - [2022-12-08; online 2022-12-08]
DOI Crossref
Predicting the Influence of Fat Food Intake on the Absorption and Systemic Exposure of Small Drugs using ANDROMEDA by Prosilico Software
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
- - (-) - [2022-12-08; online 2022-12-08]
PubMed DOI Crossref
Convolutional Neural Networks as Summary Statistics for Approximate Bayesian Computation.
AKesson M, Singh P, Wrede F, Hellander A
IEEE/ACM Trans Comput Biol Bioinform 19 (6) 3353-3365 [2022-12-08; online 2022-12-08]
PubMed DOI Crossref
Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes.
Reyna MA, Haan D, Paczkowska M, ..., Raphael BJ, PCAWG Consortium
Nat Commun 13 (1) 7566 [2022-12-08; online 2022-12-08]
PubMed DOI Crossref
Author Correction: Divergent mutational processes distinguish hypoxic and normoxic tumours.
Bhandari V, Li CH, Bristow RG, Boutros PC, PCAWG Consortium
Nat Commun 13 (1) 7569 [2022-12-08; online 2022-12-08]
PubMed DOI Crossref
Author Correction: Combined burden and functional impact tests for cancer driver discovery using DriverPower.
Shuai S, PCAWG Drivers and Functional Interpretation Working Group , Gallinger S, Stein LD, PCAWG Consortium
Nat Commun 13 (1) 7571 [2022-12-08; online 2022-12-08]
PubMed DOI Crossref
Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns.
Jiao W, Atwal G, Polak P, ..., Stein LD, PCAWG Consortium
Nat Commun 13 (1) 7573 [2022-12-08; online 2022-12-08]
DOI Crossref
The impact of genetically controlled splicing on exon inclusion and protein structure
Einson J, Minaeva M, Rafi F, Lappalainen T
- - (-) - [2022-12-07; online 2022-12-07]
PubMed DOI Crossref
SETD7 Expression Is Associated with Breast Cancer Survival Outcomes for Specific Molecular Subtypes: A Systematic Analysis of Publicly Available Datasets.
Monteiro FL, Stepanauskaite L, Williams C, Helguero LA
Cancers (Basel) 14 (24) - [2022-12-07; online 2022-12-07]
PubMed DOI Crossref
Funnel metadynamics and behavioral studies reveal complex effect of D2AAK1 ligand on anxiety-like processes.
Bartuzi D, Kędzierska E, Targowska-Duda KM, ..., Poso A, Kaczor AA
Sci Rep 12 (1) 21192 [2022-12-07; online 2022-12-07]
PubMed DOI Crossref
Aporphine and isoquinoline derivatives block glioblastoma cell stemness and enhance temozolomide cytotoxicity.
Rodrigues-Junior DM, Raminelli C, Hassanie H, ..., Moustakas A, Vettore AL
Sci Rep 12 (1) 21113 [2022-12-07; online 2022-12-07]
DOI Crossref
Role of interneuron subtypes in controlling trial-by-trial output variability in the neocortex
Guo L, Kumar A
- - (-) - [2022-12-06; online 2022-12-06]
PubMed DOI Crossref
Measuring single-virus fusion kinetics using an assay for nucleic acid exposure.
Villamil Giraldo AM, Mannsverk S, Kasson PM
Biophys. J. 121 (23) 4467-4475 [2022-12-06; online 2022-11-09]
DOI Crossref
Itch receptor MRGPRX4 interacts with the receptor activity-modifying proteins (RAMPs)
Kotliar IB, Ceraudo E, Kemelmakher-Liben K, ..., Schwenk JM, Sakmar TP
- - (-) - [2022-12-06; online 2022-12-06]
PubMed DOI Crossref
In Vitro Transcriptome Analysis of Cobalt Boride Nanoparticles on Human Pulmonary Alveolar Cells.
Arslan ME, Tatar A, Yıldırım ÖÇ, ..., Mardinoğlu A, Türkez H
Materials (Basel) 15 (23) - [2022-12-06; online 2022-12-06]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Scavenger receptor endocytosis controls apical membrane morphogenesis in the Drosophila airways
Pinheiro AS, Tsarouhas V, Senti K, Arefin B, Samakovlis C
- - (-) - [2022-12-05; online 2022-12-05]
DOI Crossref
Orthogonal proteomics methods warrants development of Duchenne Muscular Dystrophy biomarkers
Johansson C, Hunt H, Signorelli M, ..., Uhlén M, Szigyarto CAK
- - (-) - [2022-12-05; online 2022-12-05]
DOI Crossref
Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR
Obana N, Takada H, Crowe-McAuliffe C, ..., Wilson DN, Hauryliuk V
- - (-) - [2022-12-05; online 2022-12-05]
PubMed DOI Crossref
Ecology, Not Host Phylogeny, Shapes the Oral Microbiome in Closely Related Species.
Moraitou M, Forsythe A, Fellows Yates JA, ..., Warinner C, Guschanski K
Mol. Biol. Evol. 39 (12) - [2022-12-05; online 2022-12-07]
PubMed DOI Crossref
Discovery of the 4-aminopiperidine-based compound EM127 for the site-specific covalent inhibition of SMYD3.
Parenti MD, Naldi M, Manoni E, ..., Bartolini M, Del Rio A
Eur J Med Chem 243 (-) 114683 [2022-12-05; online 2022-09-08]
PubMed DOI Crossref
Development of l-Dopa-containing diketopiperazines as blood-brain barrier shuttle.
Cornacchia C, Marinelli L, Di Rienzo A, ..., Di Stefano A, Cacciatore I
Eur J Med Chem 243 (-) 114746 [2022-12-05; online 2022-09-08]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Visualization & Quality Control Tools for Large-scale Multiplex Tissue Analysis in TissUUmaps 3
Behanova A, Avenel C, Andersson A, ..., Östman A, Wählby C
- - (-) - [2022-12-02; online 2022-12-02]
PubMed DOI Crossref
Personalized health risk assessment based on single-cell RNA sequencing analysis of a male with 45, X/48, XYYY karyotype.
Koczkowska M, Jąkalski M, Birkholz-Walerzak D, ..., Mieczkowski J, Piotrowski A
Sci Rep 12 (1) 20854 [2022-12-02; online 2022-12-02]
PubMed DOI Crossref
NF-kB in Signaling Patterns and Its Temporal Dynamics Encode/Decode Human Diseases.
Almowallad S, Alqahtani LS, Mobashir M
Life (Basel) 12 (12) - [2022-12-02; online 2022-12-02]
PubMed DOI Crossref
Madagascar's extraordinary biodiversity: Threats and opportunities.
Ralimanana H, Perrigo AL, Smith RJ, ..., Zizka A, Antonelli A
Science (New York, N.Y.) 378 (6623) eadf1466 [2022-12-02; online 2022-12-02]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Madagascar's extraordinary biodiversity: Evolution, distribution, and use.
Antonelli A, Smith RJ, Perrigo AL, ..., Zizka A, Ralimanana H
Science (New York, N.Y.) 378 (6623) eabf0869 [2022-12-02; online 2022-12-02]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Inhibition of mutant RAS-RAF interaction by mimicking structural and dynamic properties of phosphorylated RAS.
Ilter M, Kasmer R, Jalalypour F, ..., Karakas N, Sensoy O
Elife 11 (-) - [2022-12-02; online 2022-12-02]
PubMed DOI Crossref
Editorial: Machine learning, epistasis, and protein engineering: From sequence-structure-function relationships to regulation of metabolic pathways.
Cadet F, Saavedra E, Syren PO, Gontero B
Front Mol Biosci 9 (-) 1098289 [2022-12-02; online 2022-12-02]
PubMed DOI Crossref
Hybrid immunity in immunocompromised patients with CLL after SARS-CoV-2 infection followed by booster mRNA vaccination.
Blixt L, Gao Y, Wullimann D, ..., Hansson L, Österborg A
Blood 140 (22) 2403-2407 [2022-12-01; online 2022-09-24]
DOI Crossref
High-efficiency transfection of<i>Acanthamoeba castellanii</i>using a cationic polymer
Moreno AB, Ek V, Eriksson J, Sellin ME, Guy L
- - (-) - [2022-12-01; online 2022-12-01]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
ToMExO: A probabilistic tree-structured model for cancer progression.
Mohaghegh Neyshabouri M, Lagergren J
PLoS Comput Biol 18 (12) e1010732 [2022-12-00; online 2022-12-05]
PubMed DOI Crossref
Teasing apart the joint effect of demography and natural selection in the birth of a contact zone.
Li L, Milesi P, Tiret M, ..., Wu HX, Lascoux M
New Phytol. 236 (5) 1976-1987 [2022-12-00; online 2022-09-30]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Targeting SAMHD1 with hydroxyurea in first-line cytarabine-based therapy of newly diagnosed acute myeloid leukaemia: Results from the HEAT-AML trial.
Jädersten M, Lilienthal I, Tsesmetzis N, ..., Henter JI, Herold N
J. Intern. Med. 292 (6) 925-940 [2022-12-00; online 2022-08-18]
PubMed DOI Crossref
TOPAS, a network-based approach to detect disease modules in a top-down fashion.
Buzzao D, Castresana-Aguirre M, Guala D, Sonnhammer ELL
NAR Genomics and Bioinformatics 4 (4) lqac093 [2022-12-00; online 2022-11-29]
PubMed DOI Crossref
Rapid TAURUS for Relaxation-Based Color Magnetic Particle Imaging.
Arslan MT, Ozaslan AA, Kurt S, Muslu Y, Saritas EU
IEEE Trans Med Imaging 41 (12) 3774-3786 [2022-12-00; online 2022-12-02]
PubMed DOI Crossref
Plasma Metabolite Profiles Associated with the Amount and Source of Meat and Fish Consumption and the Risk of Type 2 Diabetes.
García-Gavilán J, Nishi SK, Paz-Graniel I, ..., Hu FB, Salas-Salvadó J
Mol Nutr Food Res 66 (23) e2200145 [2022-12-00; online 2022-10-26]
Clemens Wittenbecher DDLS Fellow
PubMed DOI Crossref
Phylogenetic affiliation of mitochondria with Alpha-II and Rickettsiales is an artefact.
Martijn J, Vosseberg J, Guy L, Offre P, Ettema TJG
Nat Ecol Evol 6 (12) 1829-1831 [2022-12-00; online 2022-10-24]
DOI Crossref
Inorganic nanoparticles for oral drug delivery: opportunities, barriers, and future perspectives
Asad S, Jacobsen AC, Teleki A
Current Opinion in Chemical Engineering 38 (-) 100869 [2022-12-00; online 2022-12-00]
Alexandra Teleki SciLifeLab Fellow
PubMed DOI Crossref
How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.
Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M
New Phytol. 236 (6) 2344-2357 [2022-12-00; online 2022-09-30]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Grey matter morphology in women with premenstrual dysphoric disorder treated with a selective progesterone receptor modulator.
Kaltsouni E, Dubol M, Wikström J, ..., Sundström-Poromaa I, Comasco E
Eur Neuropsychopharmacol 65 (-) 35-43 [2022-12-00; online 2022-11-04]
Erika Comasco SciLifeLab Fellow
PubMed DOI Crossref
Genomic Profiling Identifies Putative Pathogenic Alterations in NSCLC Brain Metastases.
Nicoś M, Harbers L, Patrucco E, ..., Ambrogio C, Crosetto N
JTO Clin Res Rep 3 (12) 100435 [2022-12-00; online 2022-11-11]
Magda Bienko SciLifeLab Fellow
PubMed DOI Crossref
Five commercially-available antibodies react differentially with allelic forms of human HLA-DR beta chain.
Houtman M, Dzebisashvili A, Dubnovitsky A, ..., Malmström V, Padyukov L
Mol. Immunol. 152 (-) 106-110 [2022-12-00; online 2022-10-27]
PubMed DOI Crossref
Current challenges in understanding the role of enhancers in disease.
Zaugg JB, Sahlén P, Andersson R, ..., Rada-Iglesias A, Spicuglia S
Nat. Struct. Mol. Biol. 29 (12) 1148-1158 [2022-12-00; online 2022-12-08]
PubMed DOI Crossref
A microfluidic-based approach to investigate the inflammatory response of macrophages to pristine and drug-loaded nanostructured hydroxyapatite.
Carter SD, Atif AR, Diez-Escudero A, ..., Tenje M, Mestres G
Mater Today Bio 16 (-) 100351 [2022-12-00; online 2022-07-07]
PubMed DOI Crossref
The Olfactomedin-4-Defined Human Neutrophil Subsets Differ in Proteomic Profile in Healthy Individuals and Patients with Septic Shock.
Lundquist H, Andersson H, Chew MS, ..., Turkina MV, Welin A
J Innate Immun 15 (1) 351-364 [2022-11-30; online 2022-11-30]
PubMed DOI Crossref
Salmonella enterica serovar Cerro displays a phylogenetic structure and genomic features consistent with virulence attenuation and adaptation to cattle.
Cohn AR, Orsi RH, Carroll LM, ..., Wiedmann M, Cheng RA
Front Microbiol 13 (-) 1005215 [2022-11-30; online 2022-11-30]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Single-cell BCR and transcriptome analysis after influenza infection reveals spatiotemporal dynamics of antigen-specific B cells.
Mathew NR, Jayanthan JK, Smirnov IV, ..., Bemark M, Angeletti D
Cell Reports 41 (9) 111764 [2022-11-29; online 2022-12-01]
PubMed DOI Crossref
Overexpressed c-Myc Sensitizes Cells to TH1579, a Mitotic Arrest and Oxidative DNA Damage Inducer.
Henriksson S, Calderón-Montaño JM, Solvie D, Warpman Berglund U, Helleday T
Biomolecules 12 (12) - [2022-11-29; online 2022-11-29]
DOI Crossref
Magnetic Bead Based Proximity Extension Assay for Sensitive Protein and Extracellular Vesicles Detection
Muthelo P, Ebai T, Doulabi EM, ..., Kamali-Moghaddam M, Landegren U
- - (-) - [2022-11-27; online 2022-11-27]
DOI Crossref
Predicting Gastrointestinal Absorption of Prodrugs and their Drugs with the ANDROMEDA by Prosilico Software
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
- - (-) - [2022-11-25; online 2022-11-25]
DOI Crossref
Miniature spatial transcriptomics for studying parasite-endosymbiont relationships at the micro scale
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Identification of a Small Molecule Inhibitor of Hyaluronan Synthesis, DDIT, Targeting Breast Cancer Cells.
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Gasdermin D is the only Gasdermin that provides non-redundant protection against acute Salmonella gut infection
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Editorial: Application of systems biology in molecular characterization and diagnosis of cancer, Volume II.
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Spatial transcriptomics of T and B cell receptors uncovers lymphocyte clonal dynamics in human tissue
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Proof-of-principle studies on a strategy to enhance nucleotide imbalance specifically in cancer cells.
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Multiplexed selectivity screening of anti-GPCR antibodies
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Finding Haplotypic Signatures in Proteins
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Insights into the importance of WPD-loop sequence for activity and structure in protein tyrosine phosphatases.
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Breast cancer spheroids can model phenotypic heterogeneity of cancer cells to evaluate targeted therapies.
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A Novel Machine Learning Method for Mutational Analysis to Identifying Driver Genes in Breast Cancer
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Temporal Association of Total Serum Cholesterol and Pancreatic Cancer Incidence.
Wang QL, Khil J, Hong S, ..., Kim HC, Giovannucci EL
Nutrients 14 (22) - [2022-11-21; online 2022-11-21]
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Challenges and considerations for single-cell and spatially resolved transcriptomics sample collection during spaceflight.
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Toxicity of Glycyl-l-Prolyl-l-Glutamate Pseudotripeptides: Cytotoxic, Oxidative, Genotoxic, and Embryotoxic Perspectives.
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Biologic Evaluation of a Heterodimeric HER2-Albumin Targeted Affibody Molecule Produced by Chemo-Enzymatic Peptide Synthesis.
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Targeting myeloid suppressive cells revives cytotoxic anti-tumor responses in pancreatic cancer.
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Drug repositioning for immunotherapy in breast cancer using single-cell and spatial transcriptomics analysis
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Platelet-leukocyte aggregate formation and inflammation in patients with pulmonary arterial hypertension and CTEPH.
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Somatic Loss of the Y Chromosome and Alzheimer’s Disease Risk
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Insights into the structure-function relationship of the NorQ/NorD chaperones from Paracoccus denitrificans reveal shared principles of interacting MoxR AAA+/VWA domain proteins
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CBP-HSF2 structural and functional interplay in Rubinstein-Taybi neurodevelopmental disorder.
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Anniina Vihervaara SciLifeLab Fellow
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The type II TGF-β receptor phosphorylates Tyr182 in the type I receptor to activate downstream Src signaling.
Yakymovych I, Yakymovych M, Hamidi A, Landström M, Heldin CH
Sci Signal 15 (760) eabp9521 [2022-11-15; online 2022-11-15]
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The global groundwater resistome: core antibiotic resistance genes, their dynamics and drivers
Kampouris ID, Bengtsson-Palme J, Babin D, ..., Berendonk TU, Klümper U
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DDLS Fellow Johan Bengtsson-Palme
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The Marine Product Elatol Is a Novel Inhibitor of Mitochondrial Translation Triggering the Integrated Stress Response and Apoptosis in Leukemia and Lymphoma Cells
Cunningham TA, Maiti P, Manara P, ..., Barrientos A, Schatz JH
Blood 140 (Supplement 1) 7819-7819 [2022-11-15; online 2022-11-15]
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Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.
Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J
Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]
Jonas Barandun SciLifeLab Fellow
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Nanopore sequencing enables multigenic family reconstruction despite highly frequent PCR-induced recombination
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Identification and Interpretation of Clinically Relevant Somatic Variants from Whole-Genome Sequencing Data
Maqbool K, Hassan Foroughi-Asl H, Ashwini Jeggari A, ..., Lohi O, Wirta V
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Enhanced TLR3 responsiveness in hepatitis C virus resistant women from the Irish anti-D cohort.
Sugrue JA, Posseme C, Tan Z, ..., Duffy D, O'Farrelly C
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Data-Driven Molecular Hallmarks of Acute Myeloid Leukemia: Biological, Prognostic and Therapeutic Implications
Erkers T, Marabita F, Struyf N, ..., Östling P, Kallioniemi O
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Comprehensive Exploration of NK Cell Education in ADCC Triggered By a Monoclonal Antibody or a Bispecific Killer Engager Molecule (BiKE)
Leijonhufvud C, Schlums H, Stikvoort A, ..., Bryceson YT, Carlsten M
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Comparison of Data from Fresh and Frozen AML Samples for Functional Drug Testing
Struyf N, Arnroth C, Sunandar S, ..., Seashore-Ludlow B, Erkers T
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Affibody-Based BCMA x CD16 Dual Engagers for Activation of NK Cells Towards Multiple Myeloma
Giang KA, Kanaya M, Boxaspen T, ..., Malmberg KJ, Nygren PÅ
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A Comprehensive DNA Methylome Analysis of Stereotyped and Non-Stereotyped CLL Reveals an Epigenetic Signature with Strong Clinical Impact Encompassing IGHV Status, Stereotypes and IGLV3-21R110
Duran-Ferrer M, Mansouri L, Nadeu F, ..., Rosenquist R, Martín-Subero JI
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STEM-19. LIVE DETECTION OF NEURAL STEM AND GLIOBLASTOMA CELLS BY A LUMINESCENT CONJUGATED OLIGOTHIOPHENE DERIVATIVE
Ilkhanizadeh S, Gracias A, Åslund AKO, ..., Nilsson KPR, Hermanson O
Neuro-oncology 24 (Supplement_7) vii35-vii35 [2022-11-14; online 2022-11-14]
PubMed DOI Crossref
Multi-foci parallelised RESOLFT nanoscopy in an extended field-of-view.
Casas Moreno X, Pennacchietti F, Minet G, ..., Barabas F, Testa I
J Microsc - (-) - [2022-11-14; online 2022-11-14]
Ilaria Testa SciLifeLab Fellow
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Gating intermediates reveal inhibitory role of the voltage sensor in a cyclic nucleotide-modulated ion channel.
Gao X, Schmidpeter PAM, Berka V, ..., Jayaraman V, Nimigean CM
Nat Commun 13 (1) 6919 [2022-11-14; online 2022-11-14]
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EPCO-16. ESTIMATING THE DIFFERENTIATION POTENTIAL AND PLASTICITY OF GLIOBLASTOMA CELLS USING STATISTICAL MECHANICS
Lång A, Larsson I, Jörnsten R, Nelander S
Neuro-oncology 24 (Supplement_7) vii119-vii119 [2022-11-14; online 2022-11-14]
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Validation of predicted conformal intervals for prediction of human clinical pharmacokinetics
Fagerholm U, Alvarsson J, Hellberg S, Spjuth O
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Quantitative Transcriptome Analysis of Purified Equine Mast Cells Identifies a Dominant Mucosal Mast Cell Population with Possible Inflammatory Functions in Airways of Asthmatic Horses.
Akula S, Riihimäki M, Waern I, ..., Hellman L, Wernersson S
Int J Mol Sci 23 (22) - [2022-11-12; online 2022-11-12]
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Developmental disruption and restoration of brain synaptome architecture in the murine Pax6 neurodevelopmental disease model.
Tomas-Roca L, Qiu Z, Fransén E, ..., Komiyama NH, Grant SGN
Nat Commun 13 (1) 6836 [2022-11-11; online 2022-11-11]
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Genomic trajectories of a near-extinction event in the Chatham Island black robin.
von Seth J, van der Valk T, Lord E, ..., Robertson BC, Dussex N
BMC Genomics 23 (1) 747 [2022-11-10; online 2022-11-10]
DDLS Fellow Tom van der Valk
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Super-Resolution Microscopy Opens New Doors to Life at the Nanoscale.
Fuhrmann M, Gockel N, Arizono M, ..., Testa I, Willig KI
J. Neurosci. 42 (45) 8488-8497 [2022-11-09; online 2022-11-10]
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Comparative serum proteomic analysis of a selected protein panel in individuals with schizophrenia and bipolar disorder and the impact of genetic risk burden on serum proteomic profiles.
Oraki Kohshour M, Kannaiyan NR, Falk AJ, ..., Nilsson P, Schulze TG
Transl Psychiatry 12 (1) 471 [2022-11-09; online 2022-11-09]
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Development of mesothelioma-specific oncolytic vaccine exploiting immunopeptidomic analysis of murine and human tumors
Chiaro J, Antignani G, Feola S, ..., Lehtiö J, Cerullo V
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Author Correction: Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level.
Wang F, Ding P, Liang X, ..., Lin L, Luo Y
Nat Commun 13 (1) 6748 [2022-11-08; online 2022-11-08]
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Xist ribonucleoproteins promote female sex-biased autoimmunity
Dou DR, Zhao Y, Belk JA, ..., Utz PJ, Chang HY
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Uncovering molecular grammars of intrinsically disordered regions that organize nucleolar fibrillar centers
King MR, Lin AZ, Ruff KM, ..., Lundberg E, Pappu RV
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PubMed DOI Crossref
The Understanding of the Potential Linkage between COVID-19, Type-2 Diabetes, and Cancer(s) Could Help in Better Drug Targets and Therapeutics.
Mobashir M
Comb Chem High Throughput Screen 25 (14) 2370-2371 [2022-11-05; online 2022-11-05]
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FRET-FISH probes chromatin compaction at individual genomic loci in single cells.
Mota A, Berezicki S, Wernersson E, ..., Crosetto N, Bienko M
Nat Commun 13 (1) 6680 [2022-11-05; online 2022-11-05]
Magda Bienko SciLifeLab Fellow
PubMed DOI Crossref
Quantitative Phosphoproteomics and Acetylomics of Safranal Anticancer Effects in Triple-Negative Breast Cancer Cells.
Ashrafian S, Zarrineh M, Jensen P, ..., Ghassempour A, Larsen MR
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Lineage-specific targets of positive selection in three leaf beetles with different defence capacity against a parasitic wasp
Yang X, Wheat C, Slotte T, Hamback P
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SciLifeLab Fellow Tanja Slotte
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Using evolutionary constraint to define novel candidate driver genes in medulloblastoma
Roy A, Sakthikumar S, Kozyrev SV, ..., Lindblad-Toh K, Forsberg-Nilsson K
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PubMed DOI Crossref
The 5-Hydroxymethylcytosine Landscape of Prostate Cancer.
Sjöström M, Zhao SG, Levy S, ..., Quigley DA, Feng FY
Cancer Res. 82 (21) 3888-3902 [2022-11-02; online 2022-10-18]
Arian Lundberg DDLS Fellow
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Next generation pan-cancer blood proteome profiling using proximity extension assay
Uhlen M, Álvez MB, Edfors F, ..., Pontén F, Fagerberg L
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Immunoglobulin G N-Glycosylation Signatures in Incident Type 2 Diabetes and Cardiovascular Disease.
Birukov A, Plavša B, Eichelmann F, ..., Lauc G, Wittenbecher C
Diabetes Care 45 (11) 2729-2736 [2022-11-01; online 2022-09-30]
Clemens Wittenbecher DDLS Fellow
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Fungal infection drives metabolic reprogramming in epithelial cells via aerobic glycolysis and an alternative TCA cycle shunt
Pellon A, Nasab SDS, Bidkhori G, ..., Shoaie S, Moyes D
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Saeed Shoaie SciLifeLab Fellow
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Establishing mammalian GLUT kinetics and lipid preferences in a reconstituted-liposome system
Saudea A, Qureshi A, McComas S, ..., Carlsson J, Drew D
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PubMed DOI Crossref
Dynamic evolution of transient receptor potential vanilloid (TRPV) ion channel family with numerous gene duplications and losses.
Morini M, Bergqvist CA, Asturiano JF, Larhammar D, Dufour S
Front Endocrinol (Lausanne) 13 (-) 1013868 [2022-11-01; online 2022-11-01]
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Targeting the DNA damage response and repair in cancer through nucleotide metabolism.
Helleday T, Rudd SG
Mol Oncol 16 (21) 3792-3810 [2022-11-00; online 2022-05-28]
PubMed DOI Crossref
Tailored Biocompatible Polyurethane-Poly(ethylene glycol) Hydrogels as a Versatile Nonfouling Biomaterial.
Speidel AT, Chivers PRA, Wood CS, ..., Olofsson PS, Stevens MM
Adv Healthc Mater 11 (21) e2201378 [2022-11-00; online 2022-08-29]
PubMed DOI Crossref
ShareLoc - an open platform for sharing localization microscopy data.
Ouyang W, Bai J, Singh MK, ..., Lelandais B, Zimmer C
Nat. Methods 19 (11) 1331-1333 [2022-11-00; online 2022-10-22]
PubMed DOI Crossref
Sex dimorphism in the tumor microenvironment - From bench to bedside and back.
He F, Furones AR, Landegren N, Fuxe J, Sarhan D
Semin. Cancer Biol. 86 (Pt 3) 166-179 [2022-11-00; online 2022-03-10]
PubMed DOI Crossref
Reply to: "Lack of hepatic autophagy promotes severity of liver injury but not steatosis": ATG7 genetic variants behave as fatty liver disease progression modifiers.
Baselli G, Romeo S, Valenti L
J Hepatol 77 (5) 1459-1461 [2022-11-00; online 2022-08-17]
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Pregnancy induces pancreatic insulin secretion in women with long-standing type 1 diabetes.
Espes D, Magnusson L, Caballero-Corbalan J, ..., Casas R, Carlsson PO
BMJ Open Diabetes Res Care 10 (6) - [2022-11-00; online 2022-11-10]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
Pharmacological characterization of 5-iodo-A-85380, a β2-selective nicotinic receptor agonist, in mice.
Akinola LS, Bagdas D, Alkhlaif Y, ..., Papke RL, Damaj MI
J Psychopharmacol 36 (11) 1280-1293 [2022-11-00; online 2022-11-02]
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NUDT1 promotes the accumulation and longevity of CD103+ TRM cells in primary biliary cholangitis.
Huang B, Lyu Z, Qian Q, ..., You Z, Ma X
J Hepatol 77 (5) 1311-1324 [2022-11-00; online 2022-06-23]
PubMed DOI Crossref
Multi-omics analysis reveals multiple mechanisms causing Prader-Willi like syndrome in a family with a X;15 translocation.
Eisfeldt J, Rezayee F, Pettersson M, ..., Grigelioniene G, Lindstrand A
Hum. Mutat. 43 (11) 1567-1575 [2022-11-00; online 2022-07-23]
PubMed DOI Crossref
Impact of type 2 diabetes on in vivo activities and protein expressions of cytochrome P450 in patients with obesity.
Kvitne KE, Åsberg A, Johnson LK, ..., Hjelmesaeth J, Robertsen I
Clin Transl Sci 15 (11) 2685-2696 [2022-11-00; online 2022-09-08]
PubMed DOI Crossref
Higher risk of severe hypoglycemia in children and adolescents with a rapid loss of C-peptide during the first 6 years after type 1 diabetes diagnosis.
Grönberg A, Espes D, Carlsson PO, Ludvigsson J
BMJ Open Diabetes Res Care 10 (6) e002991 [2022-11-00; online 2022-11-18]
Daniel Espes SciLifeLab Fellow
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Functionalized silk promotes cell migration into calcium phosphate cements by providing macropores and cell adhesion motifs
Widhe M, Diez-Escudero A, Liu Y, ..., Hedhammar M, Mestres G
Ceramics International 48 (21) 31449-31460 [2022-11-00; online 2022-11-00]
PubMed DOI Crossref
Emerging concepts in drug discovery for cancer therapy.
Murga M, Fernandez-Capetillo O
Mol Oncol 16 (21) 3757-3760 [2022-11-00; online 2022-11-03]
PubMed DOI Crossref
Elucidation of the nematicidal mode of action of grammicin on Caenorhabditis elegans.
Nguyen VT, Park AR, Duraisamy K, Vo DD, Kim JC
Pestic Biochem Physiol 188 (-) 105244 [2022-11-00; online 2022-09-19]
PubMed DOI Crossref
Curation of BIDS (CuBIDS): A workflow and software package for streamlining reproducible curation of large BIDS datasets.
Covitz S, Tapera TM, Adebimpe A, ..., Cieslak M, Satterthwaite TD
NeuroImage 263 (-) 119609 [2022-11-00; online 2022-09-03]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Cryo-EM reveals the conformational epitope of human monoclonal antibody PAM1.4 broadly reacting with polymorphic malarial protein VAR2CSA.
Raghavan SSR, Dagil R, Lopez-Perez M, ..., Lavstsen T, Wang K
PLoS Pathog 18 (11) e1010924 [2022-11-00; online 2022-11-16]
PubMed DOI Crossref
Chemogenetic inhibition of MCH neurons does not alter memory performance in mice.
Mutlu-Burnaz O, Yulug B, Oncul M, ..., Hanoglu L, Velioglu HA
Biomed. Pharmacother. 155 (-) 113771 [2022-11-00; online 2022-10-01]
PubMed DOI Crossref
Chemical traits of cerebral amyloid angiopathy in familial British-, Danish-, and non-Alzheimer's dementias.
Michno W, Koutarapu S, Camacho R, ..., Lashley T, Hanrieder J
J. Neurochem. 163 (3) 233-246 [2022-11-00; online 2022-09-25]
SciLifeLab Fellow Wojciech Michno
PubMed DOI Crossref
Advances in plasma proteomics: Moving from technology to precision medicine.
Yu X, Schwenk JM, Xu P, LaBaer J
Proteomics Clin Appl 16 (6) e2200083 [2022-11-00; online 2022-11-16]
PubMed DOI Crossref
Adaptive single-KIR+NKG2C+ NK cells expanded from select superdonors show potent missing-self reactivity and efficiently control HLA-mismatched acute myeloid leukemia.
Haroun-Izquierdo A, Vincenti M, Netskar H, ..., Malmberg KJ, Sohlberg E
J Immunother Cancer 10 (11) - [2022-11-00; online 2022-11-02]
PubMed DOI Crossref
A structural biology community assessment of AlphaFold2 applications.
Akdel M, Pires DEV, Pardo EP, ..., Croll TI, Beltrao P
Nat. Struct. Mol. Biol. 29 (11) 1056-1067 [2022-11-00; online 2022-11-07]
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Spatial and Quantitative Analysis of Tumor-Associated Macrophages: Intratumoral CD163-/PD-L1+ TAMs as a Marker of Favorable Clinical Outcomes in Triple-Negative Breast Cancer.
Shinohara H, Kobayashi M, Hayashi K, ..., Kitagawa M, Yamamoto K
Int J Mol Sci 23 (21) - [2022-10-31; online 2022-10-31]
DOI Crossref
Automated simulation-based membrane-protein refinement into cryo-EM data
Yvonnesdotter L, Rovšnik U, Blau C, ..., Howard RJ, Lindahl E
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PubMed DOI Crossref
Author Correction: Genome-wide association study identifies Sjögren's risk loci with functional implications in immune and glandular cells.
Khatri B, Tessneer KL, Rasmussen A, ..., Nordmark G, Lessard CJ
Nat Commun 13 (1) 6519 [2022-10-31; online 2022-10-31]
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Integrating Identification and Quantification Uncertainty for Differential Protein Abundance Analysis with Triqler.
The M, Käll L
Methods in molecular biology (Clifton, N.J.) 2426 (-) 91-117 [2022-10-30; online 2022-10-30]
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Autoantibody discovery across monogenic, acquired, and COVID-19-associated autoimmunity with scalable PhIP-seq.
Vazquez SE, Mann SA, Bodansky A, ..., Anderson MS, DeRisi JL
Elife 11 (-) - [2022-10-27; online 2022-10-27]
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Genomic Changes During the Evolution of the Coxiella Genus Along the Parasitism-Mutualism Continuum
Santos-Garcia D, Morel O, Henri H, ..., Duron O, Vavre F
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Expansion Spatial Transcriptomics
Fan Y, Andrusivová Ž, Wu Y, ..., Lundeberg J, Wang B
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PubMed DOI Crossref
Crystal structure of the Na+/H+ antiporter NhaA at active pH reveals the mechanistic basis for pH sensing.
Winkelmann I, Uzdavinys P, Kenney IM, ..., Beckstein O, Drew D
Nat Commun 13 (1) 6383 [2022-10-26; online 2022-10-26]
PubMed DOI Crossref
Cohort profile: the Swedish Maternal Microbiome project (SweMaMi) - assessing the dynamic associations between the microbiome and maternal and neonatal adverse events.
Fransson E, Gudnadottir U, Hugerth LW, ..., Brusselaers N, Engstrand L
BMJ Open 12 (10) e065825 [2022-10-26; online 2022-10-26]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Differential interactions of resting, activated, and desensitized states of the α7 nicotinic acetylcholine receptor with lipidic modulators.
Zhuang Y, Noviello CM, Hibbs RE, Howard RJ, Lindahl E
Proc. Natl. Acad. Sci. U.S.A. 119 (43) e2208081119 [2022-10-25; online 2022-10-17]
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Comprehensive cell atlas of the first-trimester developing human brain
Braun E, Danan-Gotthold M, Borm LE, ..., Sundström E, Linnarsson S
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PubMed DOI Crossref
A Portable, Negative-Pressure Actuated, Dynamically Tunable Microfluidic Droplet Generator.
Trossbach M, de Lucas Sanz M, Seashore-Ludlow B, Joensson HN
Micromachines (Basel) 13 (11) - [2022-10-25; online 2022-10-25]
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Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level.
Gutiérrez-Valencia J, Fracassetti M, Berdan EL, ..., Arroyo J, Slotte T
Curr. Biol. 32 (20) 4360-4371.e6 [2022-10-24; online 2022-09-09]
SciLifeLab Fellow Tanja Slotte
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A palmitate-rich metastatic niche enables metastasis growth via p65 acetylation
Altea-Manzano P, Doglioni G, Cuadros AM, ..., Malanchi I, Fendt SM
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Indirect 3D Bioprinting of a Robust Trilobular Hepatic Construct with Decellularized Liver Matrix Hydrogel.
Khati V, Turkki JA, Ramachandraiah H, ..., Gaudenzi G, Russom A
Bioengineering (Basel) 9 (11) - [2022-10-22; online 2022-10-22]
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WASH activation controls endosomal recycling and EGFR and Hippo signaling during tumor-suppressive cell competition.
Liu D, Tsarouhas V, Samakovlis C
Nat Commun 13 (1) 6243 [2022-10-21; online 2022-10-21]
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The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry.
Mohammed Taha H, Aalizadeh R, Alygizakis N, ..., Slobodnik J, Schymanski EL
Environ Sci Eur 34 (1) 104 [2022-10-21; online 2022-10-21]
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Structure-Based Discovery of Negative Allosteric Modulators of the Metabotropic Glutamate Receptor 5.
Kampen S, Rodríguez D, Jørgensen M, ..., Lebon G, Carlsson J
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PD-1 expression on mouse intratumoral NK cells and its effects on NK cell phenotype.
Wagner AK, Kadri N, Tibbitt C, ..., Kärre K, Chambers BJ
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Linking prokaryotic genome size variation to metabolic potential and environment
Rodríguez-Gijón A, Buck M, Andersson AF, ..., Nascimento FJA, Garcia SL
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Identifying Genetic Regulatory Variants that Affect Transcription Factor Activity
Li X, Lappalainen T, Bussemaker HJ
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PubMed DOI Crossref
Draft Genome Sequence of an Enterotoxigenic Escherichia coli Strain Carrying Genes for Colonization Surface Antigen 13 and a Heat-Labile Toxin.
Njoroge SM, Madé LF, von Mentzer A, ..., Woolhouse M, Kariuki S
Microbiol Resour Announc 11 (10) e0041622 [2022-10-20; online 2022-09-12]
Astrid von Mentzer DDLS Fellow
PubMed DOI Crossref
Skin permeability prediction with MD simulation sampling spatial and alchemical reaction coordinates.
Lundborg M, Wennberg C, Lidmar J, ..., Lindahl E, Norlén L
Biophys. J. 121 (20) 3837-3849 [2022-10-18; online 2022-09-13]
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Organ-specific metabolic pathways distinguish prediabetes, type 2 diabetes, and normal tissues.
Diamanti K, Cavalli M, Pereira MJ, ..., Eriksson JW, Wadelius C
Cell Rep Med 3 (10) 100763 [2022-10-18; online 2022-10-04]
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Influence of the extracellular domain size on the dynamic behavior of membrane proteins.
Gurdap CO, Wedemann L, Sych T, Sezgin E
Biophys. J. 121 (20) 3826-3836 [2022-10-18; online 2022-09-14]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Hydrogen Peroxide Induced Toxicity Is Reversed by the Macrocyclic IRAP-Inhibitor HA08 in Primary Hippocampal Cell Cultures.
Stam F, Florén Lind S, Schroff A, ..., Larhed M, Hallberg M
Curr Issues Mol Biol 44 (10) 5000-5012 [2022-10-18; online 2022-10-18]
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Extracellular vesicles in heart failure - A study in patients with heart failure with preserved ejection fraction or heart failure with reduced ejection fraction characteristics undergoing elective coronary artery bypass grafting.
Matan D, Mobarrez F, Löfström U, ..., Persson H, Wallén H
Front Cardiovasc Med 9 (-) 952974 [2022-10-18; online 2022-10-18]
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Cholesterol's balancing act: Defying the status quo.
Doktorova M, Levental I
Biophys. J. 121 (20) 3771-3773 [2022-10-18; online 2022-08-30]
DDLS Fellow Milka Doktorova
DOI Crossref
Spatiotemporal dynamics of DNA repair proteins between the Golgi and nucleus maintain genomic stability
Galea G, Kuodyte K, Khan MM, ..., Lundberg E, Pepperkok R
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Pharmacological OGG1 inhibition decreases murine allergic airway inflammation.
Tanner L, Bergwik J, Bhongir RKV, ..., Adner M, Egesten A
Front. Pharmacol. 13 (-) 999180 [2022-10-17; online 2022-10-17]
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Partial peptide dissociation and binding groove plasticity in two major histocompatibility complex class I alleles - differences between alleles versus force field and sampling effects.
Wingbermühle S, Schäfer LV
RSC Adv. 12 (46) 29908-29914 [2022-10-17; online 2022-10-19]
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Entropy predicts sensitivity of pseudo-random seeds
Maier BD, Sahlin K
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PubMed DOI Crossref
Cell chirality exhibition of brain microvascular endothelial cells is dependent on micropattern width.
Porras Hernández AM, Tenje M, Antfolk M
RSC Adv. 12 (46) 30135-30144 [2022-10-17; online 2022-10-21]
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In Vitro and In Vivo Neuroprotective Effects of Sarcosine.
Tanas A, Tozlu ÖÖ, Gezmiş T, ..., Mardinoğlu A, Türkez H
Biomed Res Int 2022 (-) 5467498 [2022-10-15; online 2022-10-15]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Astrocyte 3D Culture and Bioprinting using Peptide Functionalized Hyaluronan Hydrogels
Matthiesen I, Jury M, Boroojeni FR, ..., Aili D, Herland A
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hCoCena: horizontal integration and analysis of transcriptomics datasets.
Oestreich M, Holsten L, Agrawal S, ..., Becker M, Ulas T
Bioinformatics 38 (20) 4727-4734 [2022-10-14; online 2022-08-27]
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Routine omics collection is a golden opportunity for European human research in space and analog environments.
Cope H, Willis CRG, MacKay MJ, ..., Etheridge T, Szewczyk NJ
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Far Red-Shifted CdTe Quantum Dots for Multicolour Stimulated Emission Depletion Nanoscopy.
Alvelid J, Bucci A, Testa I
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Ilaria Testa SciLifeLab Fellow
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Is brightfield all you need for mechanism of action prediction?
Gupta A, Harrison PJ, Wieslander H, ..., Spjuth O, Sintorn IM
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Human endometrial cell-type-specific RNA sequencing provides new insights into the embryo-endometrium interplay.
Koel M, Krjutškov K, Saare M, ..., Salumets A, Altmäe S
Hum Reprod Open 2022 (4) hoac043 [2022-10-13; online 2022-10-13]
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Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search.
Bryant P, Pozzati G, Zhu W, ..., Kundrotas P, Elofsson A
Nat Commun 13 (1) 6028 [2022-10-12; online 2022-10-12]
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Scalable Constant pH Molecular Dynamics in GROMACS.
Aho N, Buslaev P, Jansen A, ..., Groenhof G, Hess B
J Chem Theory Comput 18 (10) 6148-6160 [2022-10-11; online 2022-09-21]
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Best Practices in Constant pH MD Simulations: Accuracy and Sampling.
Buslaev P, Aho N, Jansen A, ..., Hess B, Groenhof G
J Chem Theory Comput 18 (10) 6134-6147 [2022-10-11; online 2022-09-15]
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An ancestral interaction module promotes oligomerization in divergent mitochondrial ATP synthases.
Gahura O, Mühleip A, Hierro-Yap C, ..., Zíková A, Amunts A
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A Multiparametric and High-Throughput Platform for Host-Virus Binding Screens
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The heat shock protein LarA activates the Lon protease at the onset of proteotoxic stress
Omnus DJ, Fink MJ, Kallazhi A, Zaragoza MX, Jonas K
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The Performance of FDA-Approved PET Imaging Agents in the Detection of Prostate Cancer.
Li M, Zelchan R, Orlova A
Biomedicines 10 (10) - [2022-10-10; online 2022-10-10]
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Molecular tools to monitor health and disease - and lucky coincidences.
Landegren U
Ups. J. Med. Sci. 127 (-) - [2022-10-10; online 2022-10-10]
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Extending fluorescence anisotropy to large complexes using reversibly switchable proteins.
Volpato A, Ollech D, Alvelid J, ..., Ingaramo M, Testa I
Nat. Biotechnol. - (-) - [2022-10-10; online 2022-10-10]
Ilaria Testa SciLifeLab Fellow
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Metabolic Assessment of Human Induced Pluripotent Stem Cells-Derived Astrocytes and Fetal Primary Astrocytes: Lactate and Glucose Turnover.
Matthiesen I, Nasiri R, Tamashiro Orrego A, Winkler TE, Herland A
Biosensors (Basel) 12 (10) - [2022-10-08; online 2022-10-08]
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Single-cell analysis of myeloid cells in HPV + tonsillar cancer
Jimenez DG, Altunbulakli C, Swoboda S, ..., Greiff L, Lindstedt M
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Demographic and Selection Histories of Populations Across the Sahel/Savannah Belt.
Fortes-Lima C, Tříska P, Čížková M, ..., Schlebusch CM, Černý V
Mol. Biol. Evol. 39 (10) - [2022-10-07; online 2022-09-30]
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Correlative Chemical Imaging Identifies Amyloid Peptide Signatures of Neuritic Plaques and Dystrophy in Human Sporadic Alzheimer's Disease.
Koutarapu S, Ge J, Jha D, ..., Michno W, Hanrieder J
Brain Connect - (-) - [2022-10-07; online 2022-10-07]
SciLifeLab Fellow Wojciech Michno
PubMed DOI Crossref
Addressing the Protease Bias in Quantitative Proteomics.
Woessmann J, Kotol D, Hober A, Uhlén M, Edfors F
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ANDROMEDA by Prosilico Software Successfully Predicts Human Clinical Pharmacokinetics of 300 Drugs Out of Reach for In Vitro Methods
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
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PubMed DOI Crossref
A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses.
Gross SM, Dane MA, Smith RL, ..., Gray JW, Heiser LM
Commun Biol 5 (1) 1066 [2022-10-07; online 2022-10-07]
Cemal Erdem DDLS Fellow
DOI Crossref
aMeta: an accurate and memory-efficient ancient Metagenomic profiling workflow
Pochon Z, Bergfeldt N, Kırdök E, ..., Unneberg P, Oskolkov N
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Three-dimensional genome re-wiring in loci with Human Accelerated Regions
Keough KC, Whalen S, Inoue F, ..., Pollen A, Pollard KS
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High-throughput cell spheroid production and assembly analysis by microfluidics and deep learning
Trossbach M, Åkerlund E, Langer K, Seashore-Ludlow B, Joensson HN
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Neglected, yet significant role of FOXP1 in T-cell quiescence, differentiation and exhaustion.
Kaminskiy Y, Kuznetsova V, Kudriaeva A, Zmievskaya E, Bulatov E
Front Immunol 13 (-) 971045 [2022-10-04; online 2022-10-04]
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Molecular programming modulates hepatic lipid metabolism and adult metabolic risk in the offspring of obese mothers in a sex-specific manner.
Savva C, Helguero LA, González-Granillo M, ..., Kutter C, Korach-André M
Commun Biol 5 (1) 1057 [2022-10-04; online 2022-10-04]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Evolution of the ancestral mammalian karyotype and syntenic regions.
Damas J, Corbo M, Kim J, ..., Zoonomia Consortium , Lewin HA
Proc. Natl. Acad. Sci. U.S.A. 119 (40) e2209139119 [2022-10-04; online 2022-09-26]
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More than mcr : Canonical Plasmid- and Transposon-Encoded Mobilized Colistin Resistance ( mcr ) Genes Represent a Subset of Phosphoethanolamine Transferases
Gaballa A, Wiedmann M, Carroll LM
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Large-scale phylogenomics of aquatic bacteria reveal molecular mechanisms for adaptation to salinity
Jurdzinski KT, Mehrshad M, Delgado LF, ..., Bertilsson S, Andersson AF
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Knowledge of the perturbation design is essential for accurate gene regulatory network inference.
Seçilmiş D, Hillerton T, Tjärnberg A, ..., Nordling TEM, Sonnhammer ELL
Sci Rep 12 (1) 16531 [2022-10-03; online 2022-10-03]
PubMed DOI Crossref
A regression discontinuity analysis of the social distancing recommendations for older adults in Sweden during COVID-19.
Bonander C, Stranges D, Gustavsson J, ..., Björk J, COVID Symptom Study Sweden
Eur J Public Health 32 (5) 799-806 [2022-10-03; online 2022-08-14]
PubMed DOI Crossref
p73 is required for vessel integrity controlling endothelial junctional dynamics through Angiomotin.
Maeso-Alonso L, Alonso-Olivares H, Martínez-García N, ..., Marques MM, Marin MC
Cell. Mol. Life Sci. 79 (10) 535 [2022-10-01; online 2022-10-01]
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Probing effects of the SARS-CoV-2 E protein on membrane curvature and intracellular calcium.
Mehregan A, Pérez-Conesa S, Zhuang Y, ..., Ulens C, Delemotte L
Biochim Biophys Acta Biomembr 1864 (10) 183994 [2022-10-01; online 2022-06-18]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
Noncoding RNAs and RNA-binding proteins: emerging governors of liver physiology and metabolic diseases.
Sommerauer C, Kutter C
Am. J. Physiol., Cell Physiol. 323 (4) C1003-C1017 [2022-10-01; online 2022-08-15]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Data-driven analysis of a validated risk score for ovarian cancer identifies clinically distinct patterns during follow-up and treatment.
Enroth S, Ivansson E, Lindberg JH, ..., Sundfeldt K, Gyllensten U
Commun Med (Lond) 2 (-) 124 [2022-10-01; online 2022-10-01]
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Asymmetry of wetting and de-wetting on high-friction surfaces originates from the same molecular physics
Pellegrino M, Hess B
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Unravelling the Phylogeny of a Common Intestinal Protist: Intrageneric Diversity of Endolimax.
Hocke EF, Jamy M, Burki F, Clark CG, Stensvold CR
Protist 173 (5) 125908 [2022-10-00; online 2022-09-07]
Fabien Burki SciLifeLab Fellow
PubMed DOI Crossref
The mGlu5 Receptor Protomer-Mediated Dopamine D2 Receptor Trans-Inhibition Is Dependent on the Adenosine A2A Receptor Protomer: Implications for Parkinson's Disease.
Romero-Fernandez W, Taura JJ, Crans RAJ, ..., Fuxe K, Borroto-Escuela DO
Mol. Neurobiol. 59 (10) 5955-5969 [2022-10-00; online 2022-07-12]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
The era of 3D and spatial genomics.
Bouwman BAM, Crosetto N, Bienko M
Trends in Genetics 38 (10) 1062-1075 [2022-10-00; online 2022-06-06]
PubMed DOI Crossref
The dynamic interplay of PIP2 and ATP in the regulation of the KATP channel.
Pipatpolkai T, Usher SG, Vedovato N, Ashcroft FM, Stansfeld PJ
J. Physiol. (Lond.) 600 (20) 4503-4519 [2022-10-00; online 2022-09-23]
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Target-enriched nanopore sequencing and de novo assembly reveals co-occurrences of complex on-target genomic rearrangements induced by CRISPR-Cas9 in human cells.
Geng K, Merino LG, Wedemann L, ..., White RJ, Kutter C
Genome Res 32 (10) 1876-1891 [2022-10-00; online 2022-09-30]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Spatiotemporally controlled generation of NTPs for single-molecule studies.
Sabantsev A, Mao G, Aguirre Rivera J, ..., Khodorkovskiy M, Deindl S
Nat. Chem. Biol. 18 (10) 1144-1151 [2022-10-00; online 2022-09-21]
SciLifeLab Fellow Sebastian Deindl
PubMed DOI Crossref
Spatiotemporal characterization of cellular tau pathology in the human locus coeruleus-pericoerulear complex by three-dimensional imaging.
Gilvesy A, Husen E, Magloczky Z, ..., Kovacs GG, Adori C
Acta Neuropathol. 144 (4) 651-676 [2022-10-00; online 2022-08-30]
PubMed DOI Crossref
Pro-oxidative priming but maintained cardiac function in a broad spectrum of murine models of chronic kidney disease.
Wollenhaupt J, Frisch J, Harlacher E, ..., Prates Roma L, Noels H
Redox Biol 56 (-) 102459 [2022-10-00; online 2022-08-30]
PubMed DOI Crossref
Plasma RNA profiling unveils transcriptional signatures associated with resistance to osimertinib in EGFR T790M positive non-small cell lung cancer patients.
Alexeyenko A, Brustugun OT, Eide IJZ, ..., Hydbring P, Ekman S
Transl Lung Cancer Res 11 (10) 2064-2078 [2022-10-00; online 2022-11-18]
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P045: Plasma proteome profiling of cardiotoxicity in patients with Hodgkin lymphoma
Ulfstedt JM, Freyhult E, Christersson C, ..., Enblad G, Molin D
Hemasphere 6 (-) 20-21 [2022-10-00; online 2022-10-03]
PubMed DOI Crossref
Oral Contraceptives, Hormone Replacement Therapy, and Stroke Risk.
Johansson T, Fowler P, Ek WE, ..., Karlsson T, Johansson Å
Stroke 53 (10) 3107-3115 [2022-10-00; online 2022-06-23]
PubMed DOI Crossref
Obesity-associated metabolites in relation to type 2 diabetes risk: A prospective nested case-control study of the CARRS cohort.
Ali MK, Kadir MM, Gujral UP, ..., Narayan KMV, Ahmad S
Diabetes Obes Metab 24 (10) 2008-2016 [2022-10-00; online 2022-07-05]
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Mass Spectrometry and Machine Learning Reveal Determinants of Client Recognition by Antiamyloid Chaperones.
Österlund N, Vosselman T, Leppert A, ..., Sahin C, Landreh M
Mol. Cell Proteomics 21 (10) 100413 [2022-10-00; online 2022-09-15]
PubMed DOI Crossref
Markov state modelling reveals heterogeneous drug-inhibition mechanism of Calmodulin.
Westerlund AM, Sridhar A, Dahl L, ..., Bodnar AY, Delemotte L
PLoS Comput Biol 18 (10) e1010583 [2022-10-00; online 2022-10-07]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
Layer-by-Layer Cellulose Nanofibrils: A New Coating Strategy for Development and Characterization of Tumor Spheroids as a Model for In Vitro Anticancer Drug Screening.
Aljadi Z, Aval NA, Kumar T, ..., Pettersson T, Russom A
Macromol Biosci 22 (10) e2200137 [2022-10-00; online 2022-08-03]
PubMed DOI Crossref
Global patterns and rates of habitat transitions across the eukaryotic tree of life.
Jamy M, Biwer C, Vaulot D, ..., Massana R, Burki F
Nat Ecol Evol 6 (10) 1458-1470 [2022-10-00; online 2022-08-04]
Fabien Burki SciLifeLab Fellow
PubMed DOI Crossref
Event-triggered STED imaging.
Alvelid J, Damenti M, Sgattoni C, Testa I
Nat. Methods 19 (10) 1268-1275 [2022-10-00; online 2022-09-08]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.
Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM
New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Decoding the Human Genetic and Immunological Basis of COVID-19 mRNA Vaccine-Induced Myocarditis.
Bolze A, Mogensen TH, Zhang SY, ..., Casanova JL, Hsieh EWY
J Clin Immunol 42 (7) 1354-1359 [2022-10-00; online 2022-10-08]
PubMed DOI Crossref
Correction to: Vaccination against galectin-1 promotes cytotoxic T-cell infiltration in melanoma and reduces tumor burden.
Femel J, van Hooren L, Herre M, ..., Dimberg A, Olsson AK
Cancer Immunol. Immunother. 71 (10) 2581 [2022-10-00; online 2022-03-01]
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Comprehensive analysis of pathways in Coronavirus 2019 (COVID-19) using an unsupervised machine learning method.
Taheri G, Habibi M
Appl Soft Comput 128 (-) 109510 [2022-10-00; online 2022-08-17]
DDLS Fellow Golnaz Taheri
PubMed DOI Crossref
Chronic hyperinsulinemia promotes human hepatocyte senescence.
Baboota RK, Spinelli R, Erlandsson MC, ..., Kahn CR, Smith U
Mol Metab 64 (-) 101558 [2022-10-00; online 2022-07-21]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Analysis of the Human Protein Atlas Weakly Supervised Single-Cell Classification competition.
Le T, Winsnes CF, Axelsson U, ..., Ouyang W, Lundberg E
Nat. Methods 19 (10) 1221-1229 [2022-10-00; online 2022-09-29]
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Algal photosystem I dimer and high-resolution model of PSI-plastocyanin complex.
Naschberger A, Mosebach L, Tobiasson V, ..., Hippler M, Amunts A
Nat Plants 8 (10) 1191-1201 [2022-10-00; online 2022-10-13]
PubMed DOI Crossref
A new machine learning method for cancer mutation analysis.
Habibi M, Taheri G
PLoS Comput Biol 18 (10) e1010332 [2022-10-00; online 2022-10-17]
DDLS Fellow Golnaz Taheri
DOI Crossref
Prediction and Classification of the Uptake and Disposition of Antidepressants and New CNS-Active Drugs in the Human Brain using the ANDROMEDA by Prosilico Software and Brainavailability-Matrix
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
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Image recovery from unknown network mechanisms for DNA sequencing-based microscopy
Bonet DF, Hoffecker IT
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Transplantation of maternal intestinal flora to the newborn after elective cesarean section (SECFLOR): study protocol for a double blinded randomized controlled trial.
Carpén N, Brodin P, de Vos WM, ..., Andersson S, Helve O
BMC Pediatr 22 (1) 565 [2022-09-29; online 2022-09-29]
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Anti-tumor effect of berberine on chronic lymphocytic leukemia cells.
Abdollahi M, Mohammadlou M, Hemati M, ..., Sarabi MA, Kokhaei P
Med. Oncol. 39 (12) 217 [2022-09-29; online 2022-09-29]
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A “grappling hook” interaction balances self-assembly and chaperone activity of Nucleophosmin 1
Saluri M, Leppert A, Gese GV, ..., Hällberg BM, Landreh M
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Spatial tumour gene signature discriminates neoplastic from non-neoplastic compartments in colon cancer: unravelling predictive biomarkers for relapse
Sallinger K, Gruber M, Müller CT, ..., Kroneis T, El-Heliebi A
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Single cell transcriptomics delineates the immune-cell landscape in equine lower airways and reveals upregulation of the FKBP5 gene in horses with asthma
Riihimäki M, Fegraeus K, Nordlund J, ..., Hellman L, Raine A
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Quartet DNA reference materials and datasets for comprehensively evaluating germline variants calling performance
Ren L, Duan X, Dong L, ..., Fang X, Zheng Y
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Di-n-Butyl Phthalate and Its Monoester Metabolite Impairs Steroid Hormone Biosynthesis in Human Cells: Mechanistic In Vitro Studies.
Källsten L, Pierozan P, Martin JW, Karlsson O
Cells 11 (19) - [2022-09-27; online 2022-09-27]
Oskar Karlsson SciLifeLab Fellow
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Reconstructing the transport cycle in the sugar porter superfamily using coevolution-powered machine learning
Mitrovic D, Comas SM, Alleva C, ..., Drew D, Delemotte L
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Integrative functional analysis uncovers metabolic differences between Candida species.
Begum N, Lee S, Portlock TJ, ..., Moyes DL, Shoaie S
Commun Biol 5 (1) 1013 [2022-09-26; online 2022-09-26]
Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Host-mycobiome metabolic interactions in health and disease.
Begum N, Harzandi A, Lee S, ..., Moyes DL, Shoaie S
Gut Microbes 14 (1) 2121576 [2022-09-25; online 2022-09-25]
Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Omics and Multi-Omics Analysis for the Early Identification and Improved Outcome of Patients with Psoriatic Arthritis.
Gurke R, Bendes A, Bowes J, ..., Pennington SR, HIPPOCRATES Consortium
Biomedicines 10 (10) - [2022-09-24; online 2022-09-24]
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Tumoroscope: a probabilistic model for mapping cancer clones in tumor tissues
Shafighi SD, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E
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Prediction of Biopharmaceutical Characteristics of PROTACs using the ANDROMEDA by Prosilico Software
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Deep learning-based tumor microenvironment segmentation is predictive of tumor mutations and patient survival in non-small-cell lung cancer.
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Herranz R, da Silveira W, Bezdan D, Giacomello S, Szewczyk N
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Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes
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Mattila T, Svensson E, Juras A, ..., Malmström H, Jakobsson M
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Cryo-EM structure and rRNA modification sites of a plant ribosome.
Cottilli P, Itoh Y, Nobe Y, ..., Taoka M, Amunts A
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Single-cell transcriptomics of resected human traumatic brain injury tissues reveals acute activation of endogenous retroviruses in oligodendroglia
Garza R, Sharma Y, Atacho D, ..., Jakobsson J, Marklund N
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Lentini A, Pereira A, Winqvist O, Reinius B
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Antonio Lentini DDLS Fellow
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Pietiäinen V, Polso M, Migh E, ..., Horvath P, Hepojoki J
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Liu Z, Zhu Y, Zhang C, Lee S
Front Med (Lausanne) 9 (-) 989976 [2022-09-09; online 2022-09-09]
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CtIP-dependent nascent RNA expression flanking DNA breaks guides the choice of DNA repair pathway.
Gómez-Cabello D, Pappas G, Aguilar-Morante D, Dinant C, Bartek J
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Blood 140 (10) 1094-1103 [2022-09-08; online 2022-06-18]
Abhishek Niroula DDLS Fellow
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Sheffield NC, Bonazzi VR, Bourne PE, ..., Spjuth O, Yates AD
Sci Data 9 (1) 553 [2022-09-08; online 2022-09-08]
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Tozlu ÖÖ, Türkez H, Okkay U, ..., Hacımüftüoğlu A, Mardinoğlu A
Front Nutr 9 (-) 981889 [2022-09-08; online 2022-09-08]
Adil Mardinoglu SciLifeLab Fellow
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van Zoest V, Varotsis G, Menzel U, ..., Martinell M, Fall T
Sci Rep 12 (1) 15176 [2022-09-07; online 2022-09-07]
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Sanchez-Burgos L, Navarro-González B, García-Martín S, ..., Al-Shahrour F, Fernandez-Capetillo O
EMBO Mol Med 14 (9) e15855 [2022-09-07; online 2022-07-21]
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Front Oncol 12 (-) 901591 [2022-09-05; online 2022-09-05]
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Ademhan Tural D, Kasikci M, Altay O, ..., Diker KS, Ozcelik U
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Selective transfer of maternal antibodies in preterm and fullterm children.
Dolatshahi S, Butler AL, Pou C, ..., Brodin P, Alter G
Sci Rep 12 (1) 14937 [2022-09-02; online 2022-09-02]
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Ji Y, Feng S, Wu L, ..., Hackett SJ, Lei F
Sci Adv 8 (35) eabo0099 [2022-09-02; online 2022-08-31]
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MAB21L4 Deficiency Drives Squamous Cell Carcinoma via Activation of RET.
Srivastava A, Tommasi C, Sessions D, ..., Lopez-Pajares V, Lee CS
Cancer Res. 82 (17) 3143-3157 [2022-09-02; online 2022-06-16]
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Goni L, Razquin C, Toledo E, ..., Martínez-González MA, Ruiz-Canela M
Am. J. Clin. Nutr. 116 (3) 653-662 [2022-09-02; online 2022-05-17]
Clemens Wittenbecher DDLS Fellow
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Viral infection-related gene upregulation in monocytes in children with signs of β-cell autoimmunity.
Valta M, Yoshihara M, Einarsdottir E, ..., Kere J, Lempainen J
Pediatr Diabetes 23 (6) 703-713 [2022-09-00; online 2022-04-25]
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Thermodynamic limitations of PHB production from formate and fructose in Cupriavidus necator.
Janasch M, Crang N, Asplund-Samuelsson J, ..., Jahn M, Hudson EP
Metab. Eng. 73 (-) 256-269 [2022-09-00; online 2022-08-18]
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The Impact of Reference Data Selection for the Prediction Accuracy of Intrinsic Hepatic Metabolic Clearance.
Fagerholm U, Spjuth O, Hellberg S
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Bocher O, Ludwig TE, Oglobinsky MS, ..., Perdry H, Génin E
PLoS Genet 18 (9) e1009923 [2022-09-00; online 2022-09-16]
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Short- and long-term effects of body weight, calorie restriction and gastric bypass on CYP1A2, CYP2C19 and CYP2C9 activity.
Kvitne KE, Krogstad V, Wegler C, ..., Christensen H, Robertsen I
Br J Clin Pharmacol 88 (9) 4121-4133 [2022-09-00; online 2022-04-25]
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Baselli GA, Jamialahmadi O, Pelusi S, ..., Valenti LV, EPIDEMIC Study Investigators
J Hepatol 77 (3) 596-606 [2022-09-00; online 2022-04-09]
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Randomized Versus Real-World Evidence on the Efficacy and Toxicity of Checkpoint Inhibitors in Cancer in Patients with Advanced Non-small Cell Lung Cancer or Melanoma: A Meta-analysis.
Digkas E, Tabiim AJ, Smith D, Valachis A
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P16-11 In search of sensitive safety biomarkers of peripheral neurotoxicity in the rat: a collaborative effort across industry and academia (IMI NeuroDeRisk project)
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Weiss MS, Wollenhaupt J, Correy GJ, ..., Thunissen M, Pearce NM
Protein Sci. 31 (9) e4391 [2022-09-00; online 2022-08-31]
DDLS Fellow Nicholas Pearce
DOI Crossref
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Hippler M, Mosebach L, Ho TTH, ..., Nachberger A, Amunts A
Biochim Biophys Acta Bioenerg 1863 (-) 148829 [2022-09-00; online 2022-09-00]
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Rhedin S, Eklundh A, Ryd-Rinder M, ..., Naucler P, Alfvén T
Clin. Microbiol. Infect. 28 (9) 1251-1257 [2022-09-00; online 2022-05-18]
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Gahura O, Mühleip A, Hierro-Yap C, ..., Zíková A, Amunts A
Biochim Biophys Acta Bioenerg 1863 (-) 148628 [2022-09-00; online 2022-09-00]
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Microbial and human transcriptome in vaginal fluid at midgestation: Association with spontaneous preterm delivery.
Wikström T, Abrahamsson S, Bengtsson-Palme J, ..., Valentin L, Hagberg H
Clin Transl Med 12 (9) e1023 [2022-09-00; online 2022-09-15]
DDLS Fellow Johan Bengtsson-Palme
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Mendelian nightmares: the germline-restricted chromosome of songbirds.
Borodin P, Chen A, Forstmeier W, ..., Vontzou N, Suh A
Chromosome Res. 30 (2-3) 255-272 [2022-09-00; online 2022-04-13]
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Mast cell chymase has a negative impact on human osteoblasts.
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Matrix Biol. 112 (-) 1-19 [2022-09-00; online 2022-07-29]
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MNK2 deficiency potentiates β-cell regeneration via translational regulation.
Karampelias C, Watt K, Mattsson CL, ..., Larsson O, Andersson O
Nat. Chem. Biol. 18 (9) 942-953 [2022-09-00; online 2022-06-13]
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Laboratory Misidentifications Resulting from Taxonomic Changes to Bacillus cereus Group Species, 2018-2022.
Carroll LM, Matle I, Kovac J, Cheng RA, Wiedmann M
Emerg Infect Dis 28 (9) 1877-1881 [2022-09-00; online 2022-08-24]
DDLS Fellow Laura Carroll
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In Silico Predictions of the Gastrointestinal Uptake of Macrocycles in Man Using Conformal Prediction Methodology.
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
J Pharm Sci 111 (9) 2614-2619 [2022-09-00; online 2022-05-20]
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I11 High throughput screening reveal drugs to rescue polyQ induced toxicity in Huntington’s disease cell and animal models
Li X, Häggblad M, Bräutigam L, ..., Hühn D, Fernandez-Capetillo O
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Mataix-Cols D, Fernández de la Cruz L, Brander G, ..., Lichtenstein P, Sidorchuk A
Soc Psychiatry Psychiatr Epidemiol 57 (9) 1817-1827 [2022-09-00; online 2021-11-15]
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Gaseous air pollutants and DNA methylation in a methylome-wide association study of an ethnically and environmentally diverse population of U.S. adults.
Holliday KM, Gondalia R, Baldassari A, ..., Baccarelli AA, Whitsel EA
Environ. Res. 212 (Pt C) 113360 [2022-09-00; online 2022-04-30]
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Enhanced cytotoxicity of a novel family of ATPase inhibitors in colorectal cancer cells with high NAT2 activity.
Zhang X, Akcan E, Correia M, ..., Globisch D, Sjöblom T
Biochem. Pharmacol. 203 (-) 115184 [2022-09-00; online 2022-07-22]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
Early divergence of translation initiation and elongation factors.
Fer E, McGrath KM, Guy L, Hockenberry AJ, Kaçar B
Protein Sci. 31 (9) e4393 [2022-09-00; online 2022-10-18]
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Dissecting the mechanisms of environment sensitivity of smart probes for quantitative assessment of membrane properties.
Ragaller F, Andronico L, Sykora J, ..., Vattulainen I, Sezgin E
Open Biol 12 (9) 220175 [2022-09-00; online 2022-09-14]
Erdinc Sezgin SciLifeLab Fellow
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Zhang C, Shi M, Kim W, ..., Boren J, Mardinoglu A
EBioMedicine 83 (-) 104214 [2022-09-00; online 2022-08-18]
Adil Mardinoglu SciLifeLab Fellow
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Advances in spatial mass spectrometry enable in-depth neuropharmacodynamics.
Baijnath S, Kaya I, Nilsson A, Shariatgorji R, Andrén PE
Trends Pharmacol. Sci. 43 (9) 740-753 [2022-09-00; online 2022-07-05]
DOI Crossref
223P Gene expression profiles in endocrine-resistant breast cancer
Schagerholm C, Robertson S, Sifakis EG, ..., Williams C, Hartman J
Ann Oncol 33 (-) S640 [2022-09-00; online 2022-09-00]
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1711P Spatial transcriptomics reveals substantial heterogeneity in TNBC tumor and stroma compartments with potential clinical implications
Wang X, Venet D, Lifrange F, ..., Rothé F, Sotiriou C
Ann Oncol 33 (-) S1321-S1322 [2022-09-00; online 2022-09-00]
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1668P Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction
Chen X, Sifakis EG, Robertson S, ..., Ma R, Hartman J
Ann Oncol 33 (-) S1306 [2022-09-00; online 2022-09-00]
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Characterization of Selective and Potent JAK1 Inhibitors Intended for the Inhaled Treatment of Asthma.
Nilsson M, Rhedin M, Hendrickx R, ..., Birrell M, Borde A
Drug Des Devel Ther 16 (-) 2901-2917 [2022-08-31; online 2022-08-31]
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Analysis of Growth Phases of Enterotoxigenic Escherichia coli Reveals a Distinct Transition Phase before Entry into Early Stationary Phase with Shifts in Tryptophan, Fucose, and Putrescine Metabolism and Degradation of Neurotransmitter Precursors.
Joffré E, Xiao X, Correia MSP, ..., Zhu B, Sjöling Å
Microbiol Spectr 10 (4) e0175521 [2022-08-31; online 2022-07-25]
Daniel Globisch SciLifeLab Fellow
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Roshanzamir F, Robinson JL, Cook D, Karimi-Jafari MH, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 119 (35) e2205456119 [2022-08-30; online 2022-08-22]
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Cotranslational folding and assembly of the dimeric Escherichia coli inner membrane protein EmrE.
Mermans D, Nicolaus F, Fleisch K, von Heijne G
Proc. Natl. Acad. Sci. U.S.A. 119 (35) e2205810119 [2022-08-30; online 2022-08-22]
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RNA-sequencing and mass-spectrometry proteomic time-series analysis of T-cell differentiation identified multiple splice variants models that predicted validated protein biomarkers in inflammatory diseases.
Magnusson R, Rundquist O, Kim MJ, ..., Kim MS, Gustafsson M
Front Mol Biosci 9 (-) 916128 [2022-08-29; online 2022-08-29]
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Integrative genomic and transcriptomic analyses illuminate the ontology of HER2-low breast carcinomas.
Berrino E, Annaratone L, Bellomo SE, ..., Sapino A, Marchiò C
Genome Med 14 (1) 98 [2022-08-29; online 2022-08-29]
DOI Crossref
Eurasian back-migrations into Northeast Africa was a complex and multifaceted process
Hammarén R, Goldstein ST, Schlebusch CM
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Harmonized single-cell landscape, intercellular crosstalk and tumor architecture of glioblastoma
Ruiz-Moreno C, Salas SM, Samuelsson E, ..., Nilsson M, Stunnenberg HG
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TET1 regulates gene expression and repression of endogenous retroviruses independent of DNA demethylation.
Stolz P, Mantero AS, Tvardovskiy A, ..., Elsässer SJ, Bultmann S
Nucleic Acids Res. 50 (15) 8491-8511 [2022-08-26; online 2022-07-30]
SciLifeLab Fellow Simon Elsässer
DOI Crossref
Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization
Amselem E, Broadwater B, Havermark T, Johansson M, Elf J
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Quantitative bile and serum proteomics for the screening and differential diagnosis of primary sclerosing cholangitis.
Holm M, Joenväärä S, Saraswat M, ..., Renkonen R, Färkkilä M
PLoS ONE 17 (8) e0272810 [2022-08-25; online 2022-08-25]
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An actionable annotation scoring framework for gas chromatography-high-resolution mass spectrometry.
Koelmel JP, Xie H, Price EJ, ..., Martin JW, Godri Pollitt KJ
Exposome 2 (1) osac007 [2022-08-25; online 2022-08-25]
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Mesowestern Blot: Simultaneous Analysis of Hundreds of Submicroliter Lysates.
Zadeh CO, Huggins JR, Sarmah D, ..., Erdem C, Birtwistle MR
ACS Omega 7 (33) 28912-28923 [2022-08-23; online 2022-08-11]
Cemal Erdem DDLS Fellow
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Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection.
Seal S, Carreras-Puigvert J, Trapotsi MA, ..., Spjuth O, Bender A
Commun Biol 5 (1) 858 [2022-08-23; online 2022-08-23]
DOI Crossref
Overexpressed C-Myc Sensitize Cells to TH1579, an Mitotic Arrest and Oxidative DNA Damage Inducer
Henriksson S, Calderón-Montaño JM, Solvie D, Warpman Berglund U, Helleday T
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PubMed DOI Crossref
Reclassifying tumour cell cycle activity in terms of its tissue of origin.
Lundberg A, Yi JJJ, Lindström LS, Tobin NP
NPJ Precis Oncol 6 (1) 59 [2022-08-20; online 2022-08-20]
Arian Lundberg DDLS Fellow
PubMed DOI Crossref
Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome.
van der Valk T, Dehasque M, Chacón-Duque JC, ..., Díez-Del-Molino D, Dalén L
iScience 25 (8) 104826 [2022-08-19; online 2022-08-01]
DDLS Fellow Tom van der Valk
DOI Crossref
Using the ANDROMEDA by Prosilico Software for Prediction of the Human Pharmacokinetics of 4 Compounds of Natural Origin - Colistin, Curucumin, UCN-01 and Voclosporin
Fagerholm U, Hellberg S, Alvarsson J, Spjuth O
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PubMed DOI Crossref
The origin and evolution of open habitats in North America inferred by Bayesian deep learning models.
Andermann T, Strömberg CAE, Antonelli A, Silvestro D
Nat Commun 13 (1) 4833 [2022-08-17; online 2022-08-17]
DDLS Fellow Tobias Andermann
DOI Crossref
Probe set selection for targeted spatial transcriptomics
Kuemmerle LB, Luecken MD, Firsova AB, ..., Samakovlis C, Theis FJ
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PubMed DOI Crossref
Multiomics characterization implicates PTK7 in ovarian cancer EMT and cell plasticity and offers strategies for therapeutic intervention.
Raivola J, Dini A, Karvonen H, ..., Murumägi A, Ungureanu D
Cell Death Dis 13 (8) 714 [2022-08-17; online 2022-08-17]
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Zeitotox: Toxicology and the Rhythms of Life.
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The Acid Ceramidase Is a SARS-CoV-2 Host Factor.
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Microbial functional genes are driven by gradients in sediment stoichiometry, oxygen, and salinity across the Baltic benthic ecosystem.
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Microbiome 10 (1) 126 [2022-08-15; online 2022-08-15]
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Merging Bioactivity Predictions from Cell Morphology and Chemical Fingerprint Models Using Similarity to Training Data
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The S-palmitoylome and DHHC-PAT interactome of Drosophila melanogaster S2R+ cells indicate a high degree of conservation to mammalian palmitoylomes.
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agoTRIBE detects miRNA-target interactions transcriptome-wide in single cells
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DDLS Fellow Jennifer James
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Local molecular and global connectomic contributions to cross-disorder cortical abnormalities.
Hansen JY, Shafiei G, Vogel JW, ..., Dagher A, Misic B
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Functional Characterization of Genetic Variant Effects on Expression.
Flynn ED, Lappalainen T
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Structural aspects of chemical modifications in the MHC-restricted immunopeptidome; Implications for immune recognition.
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A Universal Language for Finding Mass Spectrometry Data Patterns
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Daniel Globisch SciLifeLab Fellow
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Structural and dynamic mechanisms of GABAA receptor modulators with opposing activities.
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Bacterial type I signal peptidase inhibitors - Optimized hits from nature.
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Ameliorative Effects by Hexagonal Boron Nitride Nanoparticles against Beta Amyloid Induced Neurotoxicity.
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Adult Exposure to Di-N-Butyl Phthalate (DBP) Induces Persistent Effects on Testicular Cell Markers and Testosterone Biosynthesis in Mice.
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Oskar Karlsson SciLifeLab Fellow
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Recombination of repeat elements generates somatic complexity in human genomes.
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Genome-wide single cell annotation of the human protein-coding genes
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The NORMAN Suspect List Exchange (NORMAN-SLE): Facilitating European and Worldwide Collaboration on Suspect Screening in High Resolution Mass Spectrometry
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Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects.
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Investigating the Effect of Estradiol Levels on the Risk of Breast, Endometrial, and Ovarian Cancer.
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Integrated cooling system for microfluidic PDMS devices used in biological microscopy studies
Khaji Z, Tenje M
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A novel CD34-specific T-cell engager efficiently depletes acute myeloid leukemia and leukemic stem cells in vitro and in vivo.
Arruda LCM, Stikvoort A, Lambert M, ..., Carlsten M, Uhlin M
Haematologica 107 (8) 1786-1795 [2022-08-01; online 2022-08-01]
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miR-378a regulates keratinocyte responsiveness to interleukin-17A in psoriasis.
Xia P, Pasquali L, Gao C, ..., Pivarcsi A, Sonkoly E
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What can cold-induced transcriptomes of Arctic Brassicaceae tell us about the evolution of cold tolerance?
Birkeland S, Slotte T, Krag Brysting A, ..., Brochmann C, Nowak MD
Mol. Ecol. 31 (16) 4271-4285 [2022-08-00; online 2022-07-15]
SciLifeLab Fellow Tanja Slotte
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Vaccination against galectin-1 promotes cytotoxic T-cell infiltration in melanoma and reduces tumor burden.
Femel J, van Hooren L, Herre M, ..., Dimberg A, Olsson AK
Cancer Immunol. Immunother. 71 (8) 2029-2040 [2022-08-00; online 2022-01-11]
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Tricalbin proteins regulate plasma membrane phospholipid homeostasis.
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Life Sci. Alliance 5 (8) - [2022-08-00; online 2022-04-19]
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Transcriptome variation in human tissues revealed by long-read sequencing.
Glinos DA, Garborcauskas G, Hoffman P, ..., Lappalainen T, Cummings BB
Nature 608 (7922) 353-359 [2022-08-00; online 2022-08-03]
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The ubiquitin-ligase TRAF6 and TGFβ type I receptor form a complex with Aurora kinase B contributing to mitotic progression and cytokinesis in cancer cells.
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The role of rare enhancer variants in bicuspid aortic valve pathology
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The evolutionary origin of host association in the Rickettsiales.
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Nat. Microbiol 7 (8) 1189-1199 [2022-08-00; online 2022-07-07]
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The biogenesis of β-lactamase enzymes.
Kaderabkova N, Bharathwaj M, Furniss RCD, ..., Palmer T, Mavridou DAI
Microbiology (Reading, Engl.) 168 (8) - [2022-08-00; online 2022-08-10]
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The anti-inflammatory peptide Catestatin blocks chemotaxis.
Muntjewerff EM, Parv K, Mahata SK, ..., Christoffersson G, van den Bogaart G
J Leukoc Biol 112 (2) 273-278 [2022-08-00; online 2021-12-22]
Gustaf Christoffersson SciLifeLab Fellow
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Targeting the DNA repair enzymes MTH1 and OGG1 as a novel approach to treat inflammatory diseases.
Karsten S
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Synthetic switches of OGG1 control initiation of base excision repair and offer new treatment strategies.
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SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images.
Gupta A, Sabirsh A, Wahlby C, Sintorn IM
IEEE J Biomed Health Inform 26 (8) 4079-4089 [2022-08-00; online 2022-08-11]
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SARS-CoV-2 air sampling: A systematic review on the methodologies for detection and infectivity.
Silva PG, Branco PTBS, Soares RRG, Mesquita JR, Sousa SIV
Indoor Air 32 (8) e13083 [2022-08-00; online 2022-08-31]
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Recent and local diversification of Central American understorey palms
Cano Á, Stauffer FW, Andermann T, ..., Perret M, Antonelli A
Global Ecol. Biogeogr. 31 (8) 1513-1525 [2022-08-00; online 2022-05-11]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Photophysiological response of Symbiodiniaceae single cells to temperature stress.
Xiao L, Johansson S, Rughöft S, ..., Tenje M, Behrendt L
ISME J 16 (8) 2060-2064 [2022-08-00; online 2022-04-26]
Fabien Burki Lars Behrendt SciLifeLab Fellow
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Phosphorylation of eIF4E in the stroma drives the production and spatial organisation of collagen type I in the mammary gland.
Preston SEJ, Bartish M, Richard VR, ..., Miller WH, Del Rincón SV
Matrix Biol. 111 (-) 264-288 [2022-08-00; online 2022-07-14]
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Nudix hydrolase 18 catalyzes the hydrolysis of active triphosphate metabolites of the antivirals remdesivir, ribavirin, and molnupiravir.
Jemth AS, Scaletti ER, Homan E, ..., Helleday T, Michel M
J Biol Chem 298 (8) 102169 [2022-08-00; online 2022-06-19]
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Mutation accumulation opposes polymorphism: supergenes and the curious case of balanced lethals.
Berdan EL, Blanckaert A, Butlin RK, ..., Slotte T, Wielstra B
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 377 (1856) 20210199 [2022-08-00; online 2022-06-13]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
Key Modulators of the Stress Granule Response TIA1, TDP-43, and G3BP1 Are Altered by Polyglutamine-Expanded ATXN7.
Niss F, Piñero-Paez L, Zaidi W, Hallberg E, Ström AL
Mol. Neurobiol. 59 (8) 5236-5251 [2022-08-00; online 2022-06-10]
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Interplay between Caveolin-1 and body and tumor size affects clinical outcomes in breast cancer.
Godina C, Indira Chandran V, Barbachowska M, ..., Belting M, Jernström H
Transl Oncol 22 (-) 101464 [2022-08-00; online 2022-06-01]
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Imaging cell biology.
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Human cytomegalovirus hijacks host stress response fueling replication stress and genome instability.
Merchut-Maya JM, Bartek J, Bartkova J, ..., Maya-Mendoza A, Söderberg-Naucler C
Cell Death Differ. 29 (8) 1639-1653 [2022-08-00; online 2022-02-22]
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Genomic analyses show extremely perilous conservation status of African and Asiatic cheetahs (Acinonyx jubatus).
Prost S, Machado AP, Zumbroich J, ..., Kotze A, Burger PA
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Five Percent Variant Allele Frequency Is a Reliable Reporting Threshold for TP53 Variants Detected by Next Generation Sequencing in Chronic Lymphocytic Leukemia in the Clinical Setting.
Pandzic T, Ladenvall C, Engvall M, ..., Ljungström V, Baliakas P
Hemasphere 6 (8) e761 [2022-08-00; online 2022-08-02]
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Diversity and determinants of recombination landscapes in flowering plants.
Brazier T, Glémin S
PLoS Genet 18 (8) e1010141 [2022-08-00; online 2022-08-30]
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Correlations between 4β-hydroxycholesterol and hepatic and intestinal CYP3A4: protein expression, microsomal ex vivo activity, and in vivo activity in patients with a wide body weight range.
Eide Kvitne K, Hole K, Krogstad V, ..., Molden E, Robertsen I
European journal of clinical pharmacology 78 (8) 1289-1299 [2022-08-00; online 2022-06-01]
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Baseline characteristics of 547 new onset heart failure patients in the PREFERS heart failure study.
Linde C, Ekström M, Eriksson MJ, ..., Hage C, Stockholm County/Karolinska Institutet 4D heart failure investigators
ESC Heart Fail 9 (4) 2125-2138 [2022-08-00; online 2022-04-10]
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BMP4 and Gremlin 1 regulate hepatic cell senescence during clinical progression of NAFLD/NASH.
Baboota RK, Rawshani A, Bonnet L, ..., Blüher M, Smith U
Nat Metab 4 (8) 1007-1021 [2022-08-00; online 2022-08-22]
Adil Mardinoglu SciLifeLab Fellow
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Autoantibodies in COVID-19 correlate with antiviral humoral responses and distinct immune signatures.
Taeschler P, Cervia C, Zurbuchen Y, ..., Probst-Müller E, Boyman O
Allergy 77 (8) 2415-2430 [2022-08-00; online 2022-04-08]
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Author Correction: Spatiotemporal dissection of the cell cycle with single-cell proteogenomics.
Mahdessian D, Cesnik AJ, Gnann C, ..., Sullivan DP, Lundberg E
Nature 608 (7924) E32 [2022-08-00; online 2022-08-06]
Adil Mardinoglu SciLifeLab Fellow
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Application of precision medicine in clinical routine in haematology-Challenges and opportunities.
Wästerlid T, Cavelier L, Haferlach C, ..., Fioretos T, Smedby KE
J. Intern. Med. 292 (2) 243-261 [2022-08-00; online 2022-06-04]
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Antibacterial peptide CyclomarinA creates toxicity by deregulating the Mycobacterium tuberculosis ClpC1-ClpP1P2 protease.
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J Biol Chem 298 (8) 102202 [2022-08-00; online 2022-06-26]
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Strains Associated with Two 2020 Welder Anthrax Cases in the United States Belong to Separate Lineages within Bacillus cereus sensu lato.
Carroll LM, Marston CK, Kolton CB, ..., Weiner ZP, Kovac J
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Community-driven ELIXIR activities in single-cell omics
Czarnewski P, Mahfouz A, Calogero RA, ..., Ishaque N, Korpelainen E
F1000Res 11 (-) 869 [2022-07-29; online 2022-07-29]
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Chromatin accessibility profiling in tissue sections by spatial ATAC
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Markers of neutrophil activation and neutrophil extracellular traps in diagnosing patients with acute venous thromboembolism: A feasibility study based on two VTE cohorts.
Smith P, Rosell A, Farm M, ..., Odeberg J, Thålin C
PLoS ONE 17 (7) e0270865 [2022-07-28; online 2022-07-28]
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Boron Compounds Exhibit Protective Effects against Aluminum-Induced Neurotoxicity and Genotoxicity: In Vitro and In Vivo Study.
Turkez H, Yıldırım S, Sahin E, ..., Saruhan F, Mardinoglu A
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Adil Mardinoglu SciLifeLab Fellow
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Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search.
Elofsson A, Bryant P, Pozzati G, ..., Shenoy A, Kundrotas P
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Superresolution microscopy localizes endogenous Dvl2 to Wnt signaling-responsive biomolecular condensates.
Schubert A, Voloshanenko O, Ragaller F, ..., Engel U, Boutros M
Proc. Natl. Acad. Sci. U.S.A. 119 (30) e2122476119 [2022-07-26; online 2022-07-22]
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SimVec: predicting polypharmacy side effects for new drugs.
Lukashina N, Kartysheva E, Spjuth O, Virko E, Shpilman A
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Boron Nitride Nanoparticles Loaded with a Boron-Based Hybrid as a Promising Drug Carrier System for Alzheimer's Disease Treatment.
Yıldırım ÖÇ, Arslan ME, Öner S, ..., Mardinoglu A, Turkez H
Int J Mol Sci 23 (15) - [2022-07-26; online 2022-07-26]
Adil Mardinoglu SciLifeLab Fellow
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Issues and recommendations for the residual approach to quantifying cognitive resilience and reserve.
Elman JA, Vogel JW, Bocancea DI, ..., Kremen WS, Alzheimer’s Disease Neuroimaging Initiative
Alzheimers Res Ther 14 (1) 102 [2022-07-25; online 2022-07-25]
DDLS Fellow Jacob W Vogel
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PD-L1 ATTAC mice reveal the potential of targeting PD-L1 expressing cells in cancer therapy
Fueyo-Marcos E, Fustero-Torre C, Lopez G, ..., Fernández-Capetillo O, Murga M
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EvoBind: in silico directed evolution of peptide binders with AlphaFold
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Gene-Based Variant Analysis of Whole-Exome Sequencing in Relation to Eosinophil Count.
Höglund J, Hadizadeh F, Ek WE, Karlsson T, Johansson Å
Front Immunol 13 (-) 862255 [2022-07-22; online 2022-07-22]
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SnapShot: Spatial transcriptomics.
Larsson L, Bergenstråhle L, He M, Andrusivova Z, Lundeberg J
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Multiset correlation and factor analysis enables exploration of multi-omic data
Brown BC, Wang C, Kasela S, ..., Knowles DA, Lappalainen T
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The cerebrospinal fluid proteome of preterm infants predicts neurodevelopmental outcome.
Leifsdottir K, Jost K, Siljehav V, ..., Eksborg S, Herlenius E
Front Pediatr 10 (-) 921444 [2022-07-19; online 2022-07-19]
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Stress-induced perturbations in intracellular amino acids reprogram mRNA translation in osmoadaptation independently of the ISR.
Krokowski D, Jobava R, Szkop KJ, ..., Larsson O, Hatzoglou M
Cell Reports 40 (3) 111092 [2022-07-19; online 2022-07-21]
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Spatial host-microbiome sequencing
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Spatially resolved host-bacteria-fungi interactomes via spatial metatranscriptomics
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Robust and integrative Bayesian neural networks for likelihood-free parameter inference
Wrede F, Eriksson R, Jiang R, ..., Hellander A, Singh P
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Molecular Genetic Screening in Patients With ACE Inhibitor/Angiotensin Receptor Blocker-Induced Angioedema to Explore the Role of Hereditary Angioedema Genes.
Mathey CM, Maj C, Scheer AB, ..., Nöthen MM, Forstner AJ
Front Genet 13 (-) 914376 [2022-07-18; online 2022-07-18]
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Miniaturized and multiplexed high-content screening of drug and immune sensitivity in a multichambered microwell chip.
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A broad, exposome-type evaluation of xenobiotic phase II biotransformation in human biofluids by LC-MS/MS
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Hematopoietic loss of Y chromosome leads to cardiac fibrosis and heart failure mortality.
Sano S, Horitani K, Ogawa H, ..., Forsberg LA, Walsh K
Science (New York, N.Y.) 377 (6603) 292-297 [2022-07-15; online 2022-07-14]
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Genome-scale metabolic modelling of the human gut microbiome reveals changes in the glyoxylate and dicarboxylate metabolism in metabolic disorders.
Proffitt C, Bidkhori G, Lee S, ..., Moyes DL, Shoaie S
iScience 25 (7) 104513 [2022-07-15; online 2022-06-02]
Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow
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Cryo-EM structure of the human Kv3.1 channel reveals gating control by the cytoplasmic T1 domain.
Chi G, Liang Q, Sridhar A, ..., Covarrubias M, Dürr KL
Nat Commun 13 (1) 4087 [2022-07-15; online 2022-07-15]
Lucie Delemotte SciLifeLab Fellow
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2-Alkyl substituted benzimidazoles as a new class of selective AT2 receptor ligands.
Roy T, Petersen NN, Gopalan G, ..., Hallberg M, Larhed M
Bioorg. Med. Chem. 66 (-) 116804 [2022-07-15; online 2022-05-07]
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Lokatt: A hybrid DNA nanopore basecaller with an explicit duration hidden Markov model and a residual LSTM network
Xu X, Bhalla N, Ståhl P, Jaldén J
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Galectin-9 and Interferon-Gamma Are Released by Natural Killer Cells upon Activation with Interferon-Alpha and Orchestrate the Suppression of Hepatitis C Virus Infection.
Carreca AP, Gaetani M, Busà R, ..., Conaldi PG, Badami E
Viruses 14 (7) - [2022-07-14; online 2022-07-14]
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Optimal Sparsity Selection Based on an Information Criterion for Accurate Gene Regulatory Network Inference.
Seçilmiş D, Nelander S, Sonnhammer ELL
Front Genet 13 (-) 855770 [2022-07-13; online 2022-07-13]
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Neoadjuvant Chemoradiotherapy and Surgery for Esophageal Squamous Cell Carcinoma Versus Definitive Chemoradiotherapy With Salvage Surgery as Needed: The Study Protocol for the Randomized Controlled NEEDS Trial.
Nilsson M, Olafsdottir H, Alexandersson von Döbeln G, ..., de Manzoni G, Lordick F
Front Oncol 12 (-) 917961 [2022-07-13; online 2022-07-13]
DDLS Fellow Qiaoli Wang
PubMed DOI Crossref
Intratumoral administration of pro-inflammatory allogeneic dendritic cells improved the anti-tumor response of systemic anti-CTLA-4 treatment via unleashing a T cell-dependent response.
Jin C, Ali A, Iskantar A, ..., Karlsson-Parra A, Yu D
Oncoimmunology 11 (1) 2099642 [2022-07-13; online 2022-07-13]
PubMed DOI Crossref
3D Bioprinting of Multi-Material Decellularized Liver Matrix Hydrogel at Physiological Temperatures.
Khati V, Ramachandraiah H, Pati F, ..., Gaudenzi G, Russom A
Biosensors (Basel) 12 (7) - [2022-07-13; online 2022-07-13]
PubMed DOI Crossref
Multi-Omics Interdisciplinary Research Integration to Accelerate Dementia Biomarker Development (MIRIADE).
Mavrina E, Kimble L, Waury K, ..., Teunissen C, MIRIADE consortium
Front Neurol 13 (-) 890638 [2022-07-12; online 2022-07-12]
PubMed DOI Crossref
Fibrin protofibril packing and clot stability are enhanced by extended knob-hole interactions and catch-slip bonds.
Asquith NL, Duval C, Zhmurov A, ..., Barsegov V, Ariëns RAS
Blood Adv 6 (13) 4015-4027 [2022-07-12; online 2022-05-14]
DOI Crossref
Autocrine Sfrp1 inhibits lung fibroblast invasion during transition to injury induced myofibroblasts
Mayr CH, Sengupta A, Ansari M, ..., Burgstaller G, Schiller HB
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PubMed DOI Crossref
An atlas of endogenous DNA double-strand breaks arising during human neural cell fate determination.
Ballarino R, Bouwman BAM, Agostini F, ..., Bienko M, Crosetto N
Sci Data 9 (1) 400 [2022-07-12; online 2022-07-12]
Magda Bienko SciLifeLab Fellow
PubMed DOI Crossref
A method to predict the response to directional selection using a Kalman filter.
Milocco L, Salazar-Ciudad I
Proc. Natl. Acad. Sci. U.S.A. 119 (28) e2117916119 [2022-07-12; online 2022-07-06]
DDLS Fellow Lisandro Milocco
PubMed DOI Crossref
A human adipose tissue cell-type transcriptome atlas.
Norreen-Thorsen M, Struck EC, Öling S, ..., Dusart PJ, Butler LM
Cell Reports 40 (2) 111046 [2022-07-12; online 2022-07-14]
DOI Crossref
Single particle profiler for measuring content and properties of nano-sized bioparticles
Sych T, Schlegel J, Barriga HMG, ..., Stevens MM, Sezgin E
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PubMed DOI Crossref
Survivin Inhibition by Piperine Sensitizes Glioblastoma Cancer Stem Cells and Leads to Better Drug Response.
Warrier NM, Krishnan RK, Prabhu V, ..., Agarwal P, Kumar P
Int J Mol Sci 23 (14) - [2022-07-09; online 2022-07-09]
PubMed DOI Crossref
In Silico Structure Predictions for Non-targeted Analysis: From Physicochemical Properties to Molecular Structures.
Abrahamsson D, Siddharth A, Young TM, ..., Martin JW, Woodruff TJ
J. Am. Soc. Mass Spectrom. 33 (7) 1134-1147 [2022-07-06; online 2022-06-01]
PubMed DOI Crossref
ERα and ERβ Homodimers in the Same Cellular Context Regulate Distinct Transcriptomes and Functions.
Song D, He H, Indukuri R, ..., Zhao C, Williams C
Front Endocrinol (Lausanne) 13 (-) 930227 [2022-07-06; online 2022-07-06]
PubMed DOI Crossref
Combining hypothesis- and data-driven neuroscience modeling in FAIR workflows.
Eriksson O, Bhalla US, Blackwell KT, ..., Wade RC, Hellgren Kotaleski J
Elife 11 (-) - [2022-07-06; online 2022-07-06]
PubMed DOI Crossref
The Quest for Orthologs orthology benchmark service in 2022.
Nevers Y, Jones TEM, Jyothi D, ..., Dessimoz C, Altenhoff A
Nucleic Acids Res. 50 (W1) W623-W632 [2022-07-05; online 2022-05-14]
PubMed DOI Crossref
Myeloid cell-specific topoisomerase 1 inhibition using DNA origami mitigates neuroinflammation.
Zhu K, Wang Y, Sarlus H, ..., Högberg B, Harris RA
EMBO Rep. 23 (7) e54499 [2022-07-05; online 2022-05-20]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
GRNbenchmark - a web server for benchmarking directed gene regulatory network inference methods.
Seçilmiş D, Hillerton T, Sonnhammer ELL
Nucleic Acids Res. 50 (W1) W398-W404 [2022-07-05; online 2022-05-25]
PubMed DOI Crossref
Deep Lipidomics in Human Plasma: Cardiometabolic Disease Risk and Effect of Dietary Fat Modulation.
Eichelmann F, Sellem L, Wittenbecher C, ..., Lovegrove JA, Schulze MB
Circulation 146 (1) 21-35 [2022-07-05; online 2022-04-15]
Clemens Wittenbecher DDLS Fellow
PubMed DOI Crossref
Regeneration in the Auditory Organ in Cuban and African Dwarf Crocodiles (Crocodylus rhombifer and Osteolaemus tetraspis) Can We Learn From the Crocodile How to Restore Our Hearing?
Li H, Staxäng K, Hodik M, ..., Rask-Andersen M, Rask-Andersen H
Front Cell Dev Biol 10 (-) 934571 [2022-07-04; online 2022-07-04]
DOI Crossref
Pathway Analysis Through Mutual Information
Jeuken GS, Käll L
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DOI Crossref
A new machine learning method for cancer mutation analysis
Habibi M, Taheri G
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PubMed DOI Crossref
Angiotensin II AT2 receptor ligands with phenylthiazole scaffolds.
Gopalan G, Palo-Nieto C, Petersen NN, Hallberg M, Larhed M
Bioorg. Med. Chem. 65 (-) 116790 [2022-07-01; online 2022-05-04]
PubMed DOI Crossref
Understudied proteins: opportunities and challenges for functional proteomics.
Kustatscher G, Collins T, Gingras AC, ..., Ralser M, Rappsilber J
Nat. Methods 19 (7) 774-779 [2022-07-00; online 2022-05-10]
PubMed DOI Crossref
The age-dependent association of risk factors with pancreatic cancer.
Yuan C, Kim J, Wang QL, ..., Kraft P, Wolpin BM
Ann. Oncol. 33 (7) 693-701 [2022-07-00; online 2022-04-06]
DDLS Fellow Qiaoli Wang
PubMed DOI Crossref
Synthetic metabolic pathways for conversion of CO2 into secreted short-to medium-chain hydrocarbons using cyanobacteria.
Yunus IS, Anfelt J, Sporre E, ..., Hudson EP, Jones PR
Metab. Eng. 72 (-) 14-23 [2022-07-00; online 2022-02-05]
PubMed DOI Crossref
SignalP 6.0 predicts all five types of signal peptides using protein language models.
Teufel F, Almagro Armenteros JJ, Johansen AR, ..., von Heijne G, Nielsen H
Nat. Biotechnol. 40 (7) 1023-1025 [2022-07-00; online 2022-01-03]
PubMed DOI Crossref
Scoring of protein-protein docking models utilizing predicted interface residues.
Pozzati G, Kundrotas P, Elofsson A
Proteins 90 (7) 1493-1505 [2022-07-00; online 2022-03-14]
PubMed DOI Crossref
New Views of Old Proteins: Clarifying the Enigmatic Proteome.
Burnum-Johnson KE, Conrads TP, Drake RR, ..., Walt DR, Kelleher NL
Mol. Cell Proteomics 21 (7) 100254 [2022-07-00; online 2022-05-30]
PubMed DOI Crossref
Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.
Baranasic D, Hörtenhuber M, Balwierz PJ, ..., Lenhard B, Müller F
Nat. Genet. 54 (7) 1037-1050 [2022-07-00; online 2022-07-04]
PubMed DOI Crossref
Maternal and child biomonitoring strategies and levels of exposure in western Canada during the past seventeen years: The Alberta Biomonitoring Program: 2005-2021.
MacDonald AM, Gabos S, Braakman S, ..., Bennett MJ, Kinniburgh DW
Int J Hyg Environ Health 244 (-) 113990 [2022-07-00; online 2022-06-14]
PubMed DOI Crossref
MRI characterization of skeletal muscle size and fatty infiltration in long-term trained and untrained individuals.
Emanuelsson EB, Berry DB, Reitzner SM, ..., Sundberg CJ, Chapman MA
Physiol Rep 10 (14) e15398 [2022-07-00; online 2022-07-21]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Investigation of multiple populations highlight VEGFA polymorphisms to modulate anterior cruciate ligament injury.
Feldmann DC, Rahim M, Suijkerbuijk MAM, ..., Collins M, September AV
J Orthop Res 40 (7) 1604-1612 [2022-07-00; online 2021-10-18]
PubMed DOI Crossref
In vitro activity of ceragenins against Burkholderia cepacia complex.
Demir ES, Oyardi O, Savage PB, Altay HO, Bozkurt-Guzel C
J Antibiot (Tokyo) 75 (7) 403-409 [2022-07-00; online 2022-05-13]
PubMed DOI Crossref
Immune responses after omicron infection in triple-vaccinated health-care workers with and without previous SARS-CoV-2 infection.
Blom K, Marking U, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 22 (7) 943-945 [2022-07-00; online 2022-06-09]
PubMed DOI Crossref
Identification of early neurodegenerative pathways in progressive multiple sclerosis.
Kaufmann M, Schaupp AL, Sun R, ..., Mann M, Fugger L
Nat. Neurosci. 25 (7) 944-955 [2022-07-00; online 2022-06-20]
PubMed DOI Crossref
High Throughput Screening of a Prescription Drug Library for Inhibitors of Organic Cation Transporter 3, OCT3.
Chen EC, Matsson P, Azimi M, ..., Artursson P, Giacomini KM
Pharm. Res. 39 (7) 1599-1613 [2022-07-00; online 2022-01-28]
PubMed DOI Crossref
Harnessing secretory pathway differences between HEK293 and CHO to rescue production of difficult to express proteins.
Malm M, Kuo CC, Barzadd MM, ..., Hatton D, Rockberg J
Metab. Eng. 72 (-) 171-187 [2022-07-00; online 2022-03-14]
PubMed DOI Crossref
Giardia duodenalis.
Rojas-López L, Marques RC, Svärd SG
Trends Parasitol. 38 (7) 605-606 [2022-07-00; online 2022-01-21]
PubMed DOI Crossref
Detection of perineural invasion in prostate needle biopsies with deep neural networks.
Kartasalo K, Ström P, Ruusuvuori P, ..., Eklund M, Egevad L
Virchows Arch. 481 (1) 73-82 [2022-07-00; online 2022-04-21]
DDLS Fellow Kimmo Kartasalo
PubMed DOI Crossref
CAR T cells expressing a bacterial virulence factor trigger potent bystander antitumour responses in solid cancers.
Jin C, Ma J, Ramachandran M, Yu D, Essand M
Nat Biomed Eng 6 (7) 830-841 [2022-07-00; online 2022-04-04]
PubMed DOI Crossref
Biosynthetic potential of the global ocean microbiome.
Paoli L, Ruscheweyh HJ, Forneris CC, ..., Piel J, Sunagawa S
Nature 607 (7917) 111-118 [2022-07-00; online 2022-06-22]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Adenosine A2A receptor antagonists: from caffeine to selective non-xanthines.
Jacobson KA, Gao ZG, Matricon P, Eddy MT, Carlsson J
Br J Pharmacol 179 (14) 3496-3511 [2022-07-00; online 2020-06-19]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses.
Tamarit D, Caceres EF, Krupovic M, ..., Robinson NP, Ettema TJG
Nat. Microbiol 7 (7) 948-952 [2022-07-00; online 2022-06-27]
PubMed DOI Crossref
The healthy female microbiome across body sites: effect of hormonal contraceptives and the menstrual cycle.
Krog MC, Hugerth LW, Fransson E, ..., Schuppe-Koistinen I, Nielsen HS
Hum. Reprod. 37 (7) 1525-1543 [2022-06-30; online 2022-05-14]
DDLS Fellow Luisa Hugerth
DOI Crossref
Hexokinase 1b is a novel target for Non–small-cell lung cancer
Yozgat Y, Karakoc E, Sahin O, ..., Ozturk G, Cevher MA
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PubMed DOI Crossref
Genomic Sequencing of Bacillus cereus Sensu Lato Strains Isolated from Meat and Poultry Products in South Africa Enables Inter- and Intranational Surveillance and Source Tracking.
Carroll LM, Pierneef R, Mathole A, Atanda A, Matle I
Microbiol Spectr 10 (3) e0070022 [2022-06-29; online 2022-04-27]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
The genomic basis of the plant island syndrome in Darwin's giant daisies.
Cerca J, Petersen B, Lazaro-Guevara JM, ..., Rieseberg LH, Martin MD
Nat Commun 13 (1) 3729 [2022-06-28; online 2022-06-28]
PubMed DOI Crossref
Serine Protease Inhibitors Restrict Host Susceptibility to SARS-CoV-2 Infections.
Rosendal E, Mihai IS, Becker M, ..., Överby AK, Lenman A
MBio 13 (3) e0089222 [2022-06-28; online 2022-05-09]
DOI Crossref
Screening autism-associated environmental factors in differentiating human neural progenitors with fractional factorial design-based transcriptomics
Arora A, Becker M, Marques C, ..., Lanekoff I, Tammimies K
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DOI Crossref
From biomedical cloud platforms to microservices: next steps in FAIR data and analysis
Sheffield NC, Bonazzi V, Bourne PE, ..., Spjuth O, Yates AD
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PubMed DOI Crossref
Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression-based convolutional neural networks.
Weitz P, Wang Y, Kartasalo K, ..., Eklund M, Rantalainen M
Bioinformatics 38 (13) 3462-3469 [2022-06-27; online 2022-05-21]
DDLS Fellow Kimmo Kartasalo
PubMed DOI Crossref
Heparanase Expression Propagates Liver Damage in CCL4-Induced Mouse Model.
Cheng X, Jia J, Zhang T, ..., Vlodavsky I, Li JP
Cells 11 (13) - [2022-06-27; online 2022-06-27]
PubMed DOI Crossref
THO complex deficiency impairs DNA double-strand break repair via the RNA surveillance kinase SMG-1.
Kamp JA, Lemmens BBLG, Romeijn RJ, ..., van Schendel R, Tijsterman M
Nucleic Acids Res. 50 (11) 6235-6250 [2022-06-24; online 2022-06-08]
PubMed DOI Crossref
Small-molecule activation of OGG1 increases oxidative DNA damage repair by gaining a new function.
Michel M, Benítez-Buelga C, Calvo PA, ..., de Vega M, Helleday T
Science (New York, N.Y.) 376 (6600) 1471-1476 [2022-06-24; online 2022-06-23]
PubMed DOI Crossref
HSFs drive transcription of distinct genes and enhancers during oxidative stress and heat shock.
Himanen SV, Puustinen MC, Da Silva AJ, Vihervaara A, Sistonen L
Nucleic Acids Res. 50 (11) 6102-6115 [2022-06-24; online 2022-06-11]
Anniina Vihervaara SciLifeLab Fellow
PubMed DOI Crossref
Estrogen Receptor β (ESR2) Transcriptome and Chromatin Binding in a Mantle Cell Lymphoma Tumor Model Reveal the Tumor-Suppressing Mechanisms of Estrogens.
Huang D, Huang Z, Indukuri R, ..., Williams C, Okret S
Cancers (Basel) 14 (13) - [2022-06-24; online 2022-06-24]
PubMed DOI Crossref
Endothelial cell heterogeneity and microglia regulons revealed by a pig cell landscape at single-cell level.
Wang F, Ding P, Liang X, ..., Lin L, Luo Y
Nat Commun 13 (1) 3620 [2022-06-24; online 2022-06-24]
PubMed DOI Crossref
The VirF21:VirF30 protein ratio is affected by temperature and impacts Shigella flexneri host cell invasion.
Skovajsová E, Colonna B, Prosseda G, Sellin ME, Di Martino ML
FEMS Microbiol. Lett. 369 (1) - [2022-06-22; online 2022-05-07]
Mikael Sellin SciLifeLab Fellow
DOI Crossref
Optimizing insect metabarcoding using replicated mock communities
Iwaszkiewicz-Eggebrecht E, Granqvist E, Buczek M, ..., Ronquist F, Łukasik P
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DOI Crossref
An α-π transition in S6 shapes the conformational cycle of the bacterial sodium channel NavAb
Choudhury K, Howard RJ, Delemotte L
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DOI Crossref
A metagenomic view on fungal diversity in freshwater lakes
Sanyal A, Kluge M, Redondo MA, ..., Bertilsson S, Peura S
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PubMed DOI Crossref
Transition between conformational states of the TREK-1 K2P channel promoted by interaction with PIP2.
Panasawatwong A, Pipatpolkai T, Tucker SJ
Biophys. J. 121 (12) 2380-2388 [2022-06-21; online 2022-05-19]
PubMed DOI Crossref
Expansion of a retrovirus lineage in the koala genome.
Lillie M, Hill J, Pettersson ME, Jern P
Proc. Natl. Acad. Sci. U.S.A. 119 (25) e2201844119 [2022-06-21; online 2022-06-13]
PubMed DOI Crossref
A scalable, open-source implementation of a large-scale mechanistic model for single cell proliferation and death signaling.
Erdem C, Mutsuddy A, Bensman EM, ..., Feltus FA, Birtwistle MR
Nat Commun 13 (1) 3555 [2022-06-21; online 2022-06-21]
Cemal Erdem DDLS Fellow
DOI Crossref
Determinants of sugar-induced influx in the mammalian fructose transporter GLUT5
McComas SE, Reichenbach T, Mitrovic D, ..., Delemotte L, Drew D
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PubMed DOI Crossref
T-cell trans-synaptic vesicles are distinct and carry greater effector content than constitutive extracellular vesicles.
Céspedes PF, Jainarayanan A, Fernández-Messina L, ..., Sánchez-Madrid F, Dustin ML
Nat Commun 13 (1) 3460 [2022-06-16; online 2022-06-16]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
EviCor: Interactive Web Platform for Exploration of Molecular Features and Response to Anti-cancer Drugs.
Petrov I, Alexeyenko A
J. Mol. Biol. 434 (11) 167528 [2022-06-15; online 2022-03-05]
PubMed DOI Crossref
Differential grey matter structure in women with premenstrual dysphoric disorder: evidence from brain morphometry and data-driven classification.
Dubol M, Stiernman L, Wikström J, ..., Bixo M, Comasco E
Transl Psychiatry 12 (1) 250 [2022-06-15; online 2022-06-15]
Erika Comasco SciLifeLab Fellow
DOI Crossref
Abstract 2171: The spatial landscape of clonal somatic mutations in benign and malignant tissue
Erickson A, Berglund E, He M, ..., Lamb AD, Lundenberg J
Cancer Res. 82 (12_Supplement) 2171-2171 [2022-06-15; online 2022-06-15]
DOI Crossref
Abstract 1890: Development of the drug efficacy testing in ex vivo 3D cultures (DETECT) platform and its application to functional precision medicine in ovarian cancer
Åkerlund E, Gudoityte G, Lamodiere EM, ..., Joneborg U, Seashore-Ludlow B
Cancer Res. 82 (12_Supplement) 1890-1890 [2022-06-15; online 2022-06-15]
DOI Crossref
A GPU-based computational framework that bridges Neuron simulation and Artificial Intelligence
Zhang Y, He G, Liu X, ..., Du K, Huang T
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DOI Crossref
A GPU-based computational framework that bridges Neuron simulation and Artificial Intelligence
Zhang Y, He G, Liu X, ..., Du K, Huang T
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DOI Crossref
Obstructive sleep apnea is associated with specific gut microbiota species and functions in the population-based Swedish CardioPulmonary bioImage Study (SCAPIS)
Baldanzi G, Sayols-Baixeras S, Theorell-Haglöw J, ..., Lindberg E, Fall T
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PubMed DOI Crossref
Repositioning of Anti-Inflammatory Drugs for the Treatment of Cervical Cancer Sub-Types.
Kori M, Arga KY, Mardinoglu A, Turanli B
Front. Pharmacol. 13 (-) 884548 [2022-06-13; online 2022-06-13]
DOI Crossref
Network-based multi-omics integration reveals metabolic at-risk profile within treated HIV-infection
Mikaeloff F, Gelpi M, Benfeitas R, ..., Nielsen SD, Neogi U
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PubMed DOI Crossref
GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species.
Kutschera VE, Kierczak M, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Bioinformatics 23 (1) 228 [2022-06-13; online 2022-06-13]
DDLS Fellow Tom van der Valk
DOI Crossref
Separation of transcriptional repressor and activator functions in HDAC3
Tang M, Regadas I, Belikov S, ..., Bienko M, Mannervik M
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DOI Crossref
Nanoscale sheared droplet: volume-of-fluid, phase-field and no-slip molecular dynamics
Lācis U, Pellegrino M, Sundin J, ..., Hess B, Bagheri S
J. Fluid Mech. 940 (-) - [2022-06-10; online 2022-04-06]
PubMed DOI Crossref
Microfluidics platform for studies of peptide - polyelectrolyte interaction.
Wanselius M, Searle S, Rodler A, ..., Abrahmsén-Alami S, Hansson P
Int J Pharm 621 (-) 121785 [2022-06-10; online 2022-04-30]
Incidensen av levercancer ökar över hela världen
Kutter C
Onkologi i Sverige - (-) - [2022-06-10; online 2022-06-10]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Trade-offs predicted by metabolic network structure give rise to evolutionary specialization and phenotypic diversification.
Ekkers DM, Tusso S, Moreno-Gamez S, ..., Kuipers OP, van Doorn GS
Mol. Biol. Evol. 39 (6) - [2022-06-09; online 2022-06-09]
DOI Crossref
Markov State Modelling Reveals Heterogeneous Drug-Inhibition Mechanism of Calmodulin
Westerlund AM, Sridhar A, Dahl L, ..., Bodnar AY, Delemotte L
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PubMed DOI Crossref
FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development.
Luu TT, Søndergaard JN, Peña-Pérez L, ..., Månsson R, Kadri N
Front Immunol 13 (-) 854312 [2022-06-09; online 2022-06-09]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Diffusion and interaction dynamics of the cytosolic peroxisomal import receptor PEX5.
Galiani S, Reglinski K, Carravilla P, ..., Erdmann R, Eggeling C
Biophys Rep (N Y) 2 (2) None [2022-06-08; online 2022-06-08]
PubMed DOI Crossref
Correction to "Loop Dynamics and Enzyme Catalysis in Protein Tyrosine Phosphatases".
Crean RM, Biler M, Corbella M, ..., Hengge AC, Kamerlin SCL
Journal of the American Chemical Society 144 (22) 10091-10093 [2022-06-08; online 2022-05-24]
DOI Crossref
BioImage Model Zoo: A Community-Driven Resource for Accessible Deep Learning in BioImage Analysis
Ouyang W, Beuttenmueller F, Gómez-de-Mariscal E, ..., Jug F, Kreshuk A
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PubMed DOI Crossref
Sugar-sweetened beverage and sugar consumption and colorectal cancer incidence and mortality according to anatomic subsite.
Yuan C, Joh HK, Wang QL, ..., Giovannucci EL, Wu K
Am. J. Clin. Nutr. 115 (6) 1481-1489 [2022-06-07; online 2022-04-27]
DDLS Fellow Qiaoli Wang
PubMed DOI Crossref
Probing the Link between Pancratistatin and Mitochondrial Apoptosis through Changes in the Membrane Dynamics on the Nanoscale.
Castillo SR, Rickeard BW, DiPasquale M, ..., Kelley EG, Marquardt D
Mol. Pharm. 19 (6) 1839-1852 [2022-06-06; online 2022-05-13]
DDLS Fellow Milka Doktorova
DOI Crossref
Dissecting the mechanisms of environment sensitivity of smart probes for quantitative assessment of membrane properties
Ragaller F, Andronico L, Sykora J, ..., Vattulainen I, Sezgin E
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DOI Crossref
PATH-04. Array-based global DNA Methylation profiling of mouse brain tumors allows comparison to human tumors
Schoof M, Spohn M, Dorostkar M, ..., Kerl K, Schüller U
Neuro-oncology 24 (Supplement_1) i158-i159 [2022-06-03; online 2022-06-03]
PubMed DOI Crossref
Identification of cerebrospinal fluid and serum metabolomic biomarkers in first episode psychosis patients.
Shang P, Ho AM, Tufvesson-Alm M, ..., Erhardt S, Choi DS
Transl Psychiatry 12 (1) 229 [2022-06-03; online 2022-06-03]
PubMed DOI Crossref
Chemotherapeutic Activities of Dietary Phytoestrogens against Prostate Cancer: From Observational to Clinical Studies.
Sohel M, Sultana H, Sultana T, ..., Mitra S, Dash R
Curr. Pharm. Des. 28 (19) 1561-1580 [2022-06-03; online 2022-06-03]
PubMed DOI Crossref
A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics.
Luo X, Bittremieux W, Griss J, ..., Käll L, Perez-Riverol Y
J. Proteome Res. 21 (6) 1566-1574 [2022-06-03; online 2022-05-13]
PubMed DOI Crossref
Thermoadaptation in an Ancestral Diterpene Cyclase by Altered Loop Stability.
Hueting DA, Vanga SR, Syrén PO
J Phys Chem B 126 (21) 3809-3821 [2022-06-02; online 2022-05-18]
PubMed DOI Crossref
Secondary resistance to idelalisib is characterized by upregulation of IGF1R rather than by MAPK/ERK pathway mutations.
Tausch E, Ljungström V, Agathangelidis A, ..., Rosenquist R, Stilgenbauer S
Blood 139 (22) 3340-3344 [2022-06-02; online 2022-04-05]
PubMed DOI Crossref
Artificial neural networks enable genome-scale simulations of intracellular signaling.
Nilsson A, Peters JM, Meimetis N, Bryson B, Lauffenburger DA
Nat Commun 13 (1) 3069 [2022-06-02; online 2022-06-02]
Avlant Nilsson DDLS Fellow
PubMed DOI Crossref
Subtype-specific responses of hKv7.4 and hKv7.5 channels to polyunsaturated fatty acids reveal an unconventional modulatory site and mechanism.
Frampton DJA, Choudhury K, Nikesjö J, Delemotte L, Liin SI
Elife 11 (-) - [2022-06-01; online 2022-06-01]
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What Makes Transfer Learning Work for Medical Images: Feature Reuse &amp; Other Factors
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Phylogenetic Analysis of Small Hive Beetles From Native to Introduced Populations.
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OGG1 inhibitor TH5487 alleviates allergic airway inflammation in mice
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Hyperthermia-Induced In Situ Drug Amorphization by Superparamagnetic Nanoparticles in Oral Dosage Forms.
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The origin and evolution of mitochondrial tropism in Midichloria bacteria
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Quantitative glycoproteomics of human milk and association with atopic disease.
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Integrative multi-omics analysis reveals molecular subtypes and tumor evolution of synovial sarcoma
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Cohort profile: the Swedish study of SUDden cardiac Death in the Young (SUDDY) 2000-2010: a complete nationwide cohort of SCDs.
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Prosit Transformer: A transformer for Prediction of MS2 Spectrum Intensities.
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Potential and Therapeutic Roles of Diosmin in Human Diseases.
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Interpretable machine learning identifies paediatric Systemic Lupus Erythematosus subtypes based on gene expression data.
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Biophysical characterization of calcium-binding and modulatory-domain dynamics in a pentameric ligand-gated ion channel
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Maternal prenatal depressive symptoms and toddler behavior: an umbilical cord blood epigenome-wide association study.
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Chromatin modifier HUSH co-operates with RNA decay factor NEXT to restrict transposable element expression.
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Multi-staged gene expression profiling reveals potential genes and the critical pathways in kidney cancer.
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Inhibition of Oxidized Nucleotide Sanitation By TH1579 and Conventional Chemotherapy Cooperatively Enhance Oxidative DNA Damage and Survival in AML.
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Genetics of smoking and risk of clonal hematopoiesis.
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Cancer-Associated Fibroblasts and Squamous Epithelial Cells Constitute a Unique Microenvironment in a Mouse Model of Inflammation-Induced Colon Cancer.
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Basal cell carcinomas acquire secondary mutations to overcome dormancy and progress from microscopic to macroscopic disease.
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The right bug in the right place: opportunities for bacterial vaginosis treatment.
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AGPAT1 as a Novel Colonic Biomarker for Discriminating Between Ulcerative Colitis With and Without Primary Sclerosing Cholangitis.
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The Clinical Pharmacogenetics Implementation Consortium Guideline for SLCO1B1, ABCG2, and CYP2C9 genotypes and Statin-Associated Musculoskeletal Symptoms.
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Subtypes of Alzheimer's disease: questions, controversy, and meaning.
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Studying severe long COVID to understand post-infectious disorders beyond COVID-19.
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Scalable federated machine learning with FEDn
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SARS-CoV-2 (COVID-19)-specific T cell and B cell responses in convalescent rheumatoid arthritis: Monozygotic twins pair case observation.
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MutT Homolog 1 Inhibitor Karonudib Attenuates Autoimmune Hepatitis by Inhibiting DNA Repair in Activated T Cells.
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Mitoribosomal defects aggravate liver cancer via aberrant glycolytic flux and T cell exhaustion.
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Mitochondrial Sirtuin-3 (SIRT3) Prevents Doxorubicin-Induced Dilated Cardiomyopathy by Modulating Protein Acetylation and Oxidative Stress.
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Liver stromal cells restrict macrophage maturation and stromal IL-6 limits the differentiation of cirrhosis-linked macrophages.
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International validation of the EORTC QLQ-CLL17 questionnaire for assessment of health-related quality of life for patients with chronic lymphocytic leukaemia.
Oerlemans S, Efficace F, Kieffer JM, ..., van de Poll-Franse L, EORTC Quality of Life Group
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Glucagonlike Peptide-1 Receptor Imaging in Individuals with Type 2 Diabetes.
Eriksson O, Velikyan I, Haack T, ..., Tillner J, Wagner M
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Durable and dynamic hTERT immune responses following vaccination with the long-peptide cancer vaccine UV1: long-term follow-up of three phase I clinical trials.
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Direct Observation of Na,K‐ATPase Oligomers in The Plasma Membrane of Living Cells by FRET‐FCS
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Clonal Hematopoiesis and CKD Progression.
Niroula A, Belizaire R
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Association between menopausal hormone therapy use and mortality risk: a Swedish population-based matched cohort study.
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A2B adenosine receptor antagonists rescue lymphocyte activity in adenosine-producing patient-derived cancer models.
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A motile doublet form of Salmonella Typhimurium diversifies target search behavior at the epithelial surface.
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Understanding immune signaling using advanced imaging techniques.
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Biochem. Soc. Trans. 50 (2) 853-866 [2022-04-29; online 2022-03-29]
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Prognostic Significance of the Loss of Heterozygosity of KRAS in Early-Stage Lung Adenocarcinoma.
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Global Estimation and Mapping of the Conservation Status of Tree Species Using Artificial Intelligence.
Silva SV, Andermann T, Zizka A, Kozlowski G, Silvestro D
Front Plant Sci 13 (-) 839792 [2022-04-29; online 2022-04-29]
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Cancer cells use self-inflicted DNA breaks to evade growth limits imposed by genotoxic stress.
Larsen BD, Benada J, Yung PYK, ..., Bartek J, Sørensen CS
Science (New York, N.Y.) 376 (6592) 476-483 [2022-04-29; online 2022-04-28]
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Recent Progress and Future Direction for the Application of Multiomics Data in Clinical Liver Transplantation.
Liu Z, Xu J, Que S, ..., Mardinoglu A, Zheng S
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PathwAX II: network-based pathway analysis with interactive visualization of network crosstalk.
Ogris C, Castresana-Aguirre M, Sonnhammer ELL
Bioinformatics 38 (9) 2659-2660 [2022-04-28; online 2022-03-11]
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Author Correction: Mutational signatures reveal the role of RAD52 in p53-independent p21-driven genomic instability.
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Using genotyping and whole-exome sequencing data to improve genetic risk prediction in deep venous thrombosis
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Implications of Heparanase on Heparin Synthesis and Metabolism in Mast Cells.
Maccarana M, Jia J, Li H, ..., Vlodavsky I, Li JP
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Multiple Cortical to Striatal Accumulation Trajectories of β-Amyloid: Do All Roads Lead to Rome?
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Neurology 98 (17) 695-696 [2022-04-26; online 2022-03-25]
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Targeting Ribosome Biogenesis in Cancer: Lessons Learned and Way Forward.
Zisi A, Bartek J, Lindström MS
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Metabolic modelling of the human gut microbiome in type 2 diabetes patients in response to metformin treatment
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Elevated plasma Complement Factor H Regulating Protein 5 is associated with venous thromboembolism and COVID-19 severity
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Intrapersonal Stability of Plasma Metabolomic Profiles over 10 Years among Women.
Zeleznik OA, Wittenbecher C, Deik A, ..., Hu FB, Eliassen AH
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Clemens Wittenbecher DDLS Fellow
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A DNA molecular printer capable of programmable positioning and patterning in two dimensions.
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The Role of Bio‐based Excipients in the Formulation of Lipophilic Nutraceuticals
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Multi-omics insights into host-viral response and pathogenesis in Crimean-Congo hemorrhagic fever viruses for novel therapeutic target.
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Estimating Alpha, Beta, and Gamma Diversity Through Deep Learning.
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An atlas of genetic scores to predict multi-omic traits
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Phenotype assessment for neurodegenerative murine models with ataxia and application to Niemann-Pick disease, type C1.
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Associations of prenatal exposure to mixtures of organochlorine pesticides and smoking and drinking behaviors in adolescence.
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Oskar Karlsson SciLifeLab Fellow
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Anthraquinone derivatives as ADP-competitive inhibitors of liver pyruvate kinase.
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Eur J Med Chem 234 (-) 114270 [2022-04-15; online 2022-03-08]
Adil Mardinoglu SciLifeLab Fellow
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Adventures on the Routes of Protein Evolution-In Memoriam Dan Salah Tawfik (1955-2021).
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Differentiating amyloid beta spread in autosomal dominant and sporadic Alzheimer's disease.
Levitis E, Vogel JW, Funck T, ..., Dominantly Inherited Alzheimer Network , Alzheimer’s Disease Neuroimaging Initiative
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Platelet-Derived PDGFB Promotes Recruitment of Cancer-Associated Fibroblasts, Deposition of Extracellular Matrix and Tgfβ Signaling in the Tumor Microenvironment.
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Fast and accurate gene regulatory network inference by normalized least squares regression.
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TEsorter: An accurate and fast method to classify LTR-retrotransposons in plant genomes.
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Irritable bowel syndrome and microbiome; Switching from conventional diagnosis and therapies to personalized interventions.
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J Transl Med 20 (1) 173 [2022-04-11; online 2022-04-11]
Saeed Shoaie SciLifeLab Fellow
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Genomics: Testing the limits of de-extinction.
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Experiences From Developing Software for Large X-Ray Crystallography-Driven Protein-Ligand Studies.
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Front Mol Biosci 9 (-) 861491 [2022-04-11; online 2022-04-11]
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Grey matter correlates of affective and somatic symptoms of premenstrual dysphoric disorder.
Dubol M, Wikström J, Lanzenberger R, ..., Sundström-Poromaa I, Comasco E
Sci Rep 12 (1) 5996 [2022-04-09; online 2022-04-09]
Erika Comasco SciLifeLab Fellow
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PET-CT imaging of pulmonary inflammation using [68Ga]Ga-DOTA-TATE.
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Mendelian randomization supports bidirectional causality between telomere length and clonal hematopoiesis of indeterminate potential.
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Differential interactions of resting, activated, and desensitized states of the α7 nicotinic acetylcholine receptor with lipidic modulators
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SimSearch: A Human-in-the-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images
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Comprehensive cancer-oriented biobanking resource of human samples for studies of post-zygotic genetic variation involved in cancer predisposition.
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Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.
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Elastic dosage compensation by X-chromosome upregulation.
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Nat Commun 13 (1) 1854 [2022-04-06; online 2022-04-06]
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Editorial: Role of Sex Steroids and Their Receptor in Cancers.
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Single-cell transcriptomics to define Plasmodium falciparum stage-transition in the mosquito midgut
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MutSβ regulates G4-associated telomeric R-loops to maintain telomere integrity in ALT cancer cells.
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Deadenylase-dependent mRNA decay of GDF15 and FGF21 orchestrates food intake and energy expenditure.
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Correlates of protection, viral load trajectories and symptoms in BA.1, BA.1.1 and BA.2 breakthrough infections in triple vaccinated healthcare workers
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The relationship of major diseases with childlessness: a sibling matched case-control and population register study in Finland and Sweden
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Cotranslational folding and assembly of the dimeric E. coli inner membrane protein EmrE
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Uniting diversity to create a more inclusive academic environment.
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Anniina Vihervaara Erdinc Sezgin Lucie Delemotte Sarahi Garcia SciLifeLab Fellow
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The importance of biofilm formation for cultivation of a Micrarchaeon and its interactions with its Thermoplasmatales host.
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Size matters - the impact of nucleus size on results from spatial transcriptomics
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Putting Humpty Dumpty Back Together Again: What Does Protein Quantification Mean in Bottom-Up Proteomics?
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Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms.
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Metabolomics and Type 2 Diabetes Risk: An Updated Systematic Review and Meta-analysis of Prospective Cohort Studies.
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Is heparan sulfate a target for inhibition of RNA virus infection?
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Interpretation of the DOME Recommendations for Machine Learning in Proteomics and Metabolomics.
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Giant plasma membrane vesicles to study plasma membrane structure and dynamics.
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Exploration of ultrasound-mediated microbubble-cell membrane interactions using novel protein-loaded microbubbles and their role in immunomodulation
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Designing microplate layouts using artificial intelligence
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Upstream charged and hydrophobic residues impact the timing of membrane insertion of transmembrane helices.
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Updating the approaches to define susceptibility and resistance to anti-tuberculosis agents: implications for diagnosis and treatment.
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Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.
Ferreira PL, Batista R, Andermann T, ..., Bacon CD, Antonelli A
Mol. Phylogenet. Evol. 169 (-) 107432 [2022-04-00; online 2022-02-04]
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TP53 mutations at codon 234 are associated with chlorambucil treatment in chronic lymphocytic leukemia.
Lazarian G, Theves F, Hormi M, ..., Soussi T, French Innovative Leukemia Organisation (FILO)
Am. J. Hematol. 97 (4) E159-E162 [2022-04-00; online 2022-02-01]
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Super-resolved spatial transcriptomics by deep data fusion.
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Pulmonary and blood dendritic cells from sarcoidosis patients more potently induce IFNγ-producing Th1 cells compared with monocytes.
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Prediction of drug candidates for clear cell renal cell carcinoma using a systems biology-based drug repositioning approach.
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EBioMedicine 78 (-) 103963 [2022-04-00; online 2022-03-25]
Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow
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Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis.
Zeybel M, Arif M, Li X, ..., Borén J, Mardinoglu A
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Adil Mardinoglu SciLifeLab Fellow
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Molecular design of an electropolymerized copolymer with carboxylic and sulfonic acid functionalities
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Synthetic Metals 285 (-) 117029 [2022-04-00; online 2022-04-00]
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Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology.
Laurén I, Havervall S, Ng H, ..., Thålin C, Mangsbo S
Immun Inflamm Dis 10 (4) e595 [2022-04-00; online 2022-03-30]
Gustaf Christoffersson SciLifeLab Fellow
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Integrative study of diet-induced mouse models of NAFLD identifies PPARα as a sexually dimorphic drug target.
Smati S, Polizzi A, Fougerat A, ..., Gourdy P, Guillou H
Gut 71 (4) 807-821 [2022-04-00; online 2021-04-26]
Adil Mardinoglu SciLifeLab Fellow
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IgE cross-linking induces activation of human and mouse mast cell progenitors.
Méndez-Enríquez E, Salomonsson M, Eriksson J, ..., Sellin ME, Hallgren J
J. Allergy Clin. Immunol. 149 (4) 1458-1463 [2022-04-00; online 2021-09-04]
Mikael Sellin SciLifeLab Fellow
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Identification of a New Cholesterol-Binding Site within the IFN-γ Receptor that is Required for Signal Transduction.
Morana O, Nieto-Garai JA, Björkholm P, ..., Lorizate M, Contreras FX
Adv Sci (Weinh) 9 (11) e2105170 [2022-04-00; online 2022-02-15]
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Genetically encoded photo-switchable molecular sensors for optoacoustic and super-resolution imaging.
Mishra K, Fuenzalida-Werner JP, Pennacchietti F, ..., Ntziachristos V, Stiel AC
Nat. Biotechnol. 40 (4) 598-605 [2022-04-00; online 2021-11-29]
Ilaria Testa SciLifeLab Fellow
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Generation of a human iPSC line (UUIGPi015-A) from a patient with Dravet syndrome and a 2.9 Mb deletion spanning SCN1A on chromosome 2.
Schuster J, de Guidi C, Tripathi R, Klar J, Dahl N
Stem Cell Res 60 (-) 102712 [2022-04-00; online 2022-02-16]
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Dysregulation of macrophage PEPD in obesity determines adipose tissue fibro-inflammation and insulin resistance.
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Cytogenetics in Chronic Lymphocytic Leukemia: ERIC Perspectives and Recommendations.
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Hemasphere 6 (4) e707 [2022-04-00; online 2022-03-25]
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Circulating tumor DNA (ctDNA) in adjuvant therapy of early stage colon cancer: current status and future perspectives.
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Acta Oncol 61 (4) 523-530 [2022-04-00; online 2022-02-09]
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Cell transcriptomic atlas of the non-human primate Macaca fascicularis.
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The Fungal Endophyte Penicillium olsonii ML37 Reduces Fusarium Head Blight by Local Induced Resistance in Wheat Spikes.
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Molecular Genetics and Cytotoxic Responses to Titanium Diboride and Zinc Borate Nanoparticles on Cultured Human Primary Alveolar Epithelial Cells.
Türkez H, Arslan ME, Tatar A, ..., Tatar A, Mardinoglu A
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A Gene Co-Expression Network-Based Drug Repositioning Approach Identifies Candidates for Treatment of Hepatocellular Carcinoma.
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Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow
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Conformational Selection in Biocatalytic Plastic Degradation by PETase
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Immune priming using DC- and T cell-targeting gene therapy sensitizes both treated and distant B16 tumors to checkpoint inhibition.
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Norway spruce postglacial recolonization of Fennoscandia.
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Neutrophil extracellular traps promote cancer-associated inflammation and myocardial stress.
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N-terminome analyses underscore the prevalence of SPPL3-mediated intramembrane proteolysis among Golgi-resident enzymes and its role in Golgi enzyme secretion.
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Targeting Estrogen Signaling in the Radiation-induced Neurodegeneration: A Possible Role of Phytoestrogens.
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ELTD1 deletion reduces vascular abnormality and improves T-cell recruitment after PD-1 blockade in glioma.
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Synthesis and In Vitro Biological Evaluation of Quinolinyl Pyrimidines Targeting Type II NADH-Dehydrogenase (NDH-2).
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OpenCell: Endogenous tagging for the cartography of human cellular organization.
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A Systematic Review to Define the Multi-Faceted Role of Lysine Methyltransferase SETD7 in Cancer.
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Sirtuin-1 sensitive lysine-136 acetylation drives phase separation and pathological aggregation of TDP-43.
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Mechanistic insights into the C55-P targeting lipopeptide antibiotics revealed by structure-activity studies and high-resolution crystal structures.
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Probing Interplays between Human XBP1u Translational Arrest Peptide and 80S Ribosome.
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Network Crosstalk as a Basis for Drug Repurposing.
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GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species
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Four tumor micro-environmental niches explain a continuum of inter-patient variation in the macroscopic cellular composition of breast tumors
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Proteogenomics refines the molecular classification of chronic lymphocytic leukemia
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Plasmonic Fiber Optic Absorbance Biosensor for MDR-Mtb detection using Padlock Probing
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A drug repurposing strategy for overcoming human multiple myeloma resistance to standard-of-care treatment.
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A deep learning framework for characterization of genotype data.
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Critical role of PCYT2 in muscle health and aging
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A Lab-in-a-Fiber optofluidic device using droplet microfluidics and laser-induced fluorescence for virus detection.
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Longitudinal assessment of reactivity and affinity profile of anti-Jo1 autoantibodies to distinct HisRS domains and a splice variant in a cohort of patients with myositis and anti-synthetase syndrome.
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Inducible CRISPR/Cas9 allows for multiplexed and rapidly segregated single target genome editing in Synechocystis sp. PCC 6803
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Host Adaptation in Legionellales Is 1.9 Ga, Coincident with Eukaryogenesis.
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Use of Antibiotics and Risk of Psychiatric Disorders in Newly Diagnosed Cancer Patients: A Population-Based Cohort Study in Sweden.
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Cancer Epidemiol Biomarkers Prev 31 (3) 528-535 [2022-03-01; online 2022-01-15]
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Landscape of surfaceome and endocytome in human glioma is divergent and depends on cellular spatial organization.
Governa V, Talbot H, Gonçalves de Oliveira K, ..., Welinder C, Belting M
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High cardiomyocyte diversity in human early prenatal heart development
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Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
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The relationship between ageing and changes in the human blood and brain methylomes.
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The SWI/SNF subunit BRG1 affects alternative splicing by changing RNA binding factor interactions with nascent RNA.
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Mol. Genet. Genomics 297 (2) 463-484 [2022-03-00; online 2022-02-20]
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PLoS Comput Biol 18 (3) e1009823 [2022-03-00; online 2022-03-24]
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Survival analysis of pathway activity as a prognostic determinant in breast cancer.
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PLoS Comput Biol 18 (3) e1010020 [2022-03-00; online 2022-03-28]
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Stromal FAP Expression is Associated with MRI Visibility and Patient Survival in Prostate Cancer.
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Rare variants in the outcome of social skills group training for autism.
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RNA-interference screen for p53 regulators unveils a role of WDR75 in ribosome biogenesis.
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Proteomics in thrombosis research.
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On the origin of TSAR: morphology, diversity and phylogeny of Telonemia.
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Open Biol 12 (3) 210325 [2022-03-00; online 2022-03-16]
Fabien Burki SciLifeLab Fellow
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MYCMI-7: A Small MYC-Binding Compound that Inhibits MYC: MAX Interaction and Tumor Growth in a MYC-Dependent Manner.
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Longitudinal trajectories of lifetime body shape and prostate cancer angiogenesis.
Wang QL, Song M, Clinton SK, ..., Lagergren J, Giovannucci EL
Eur. J. Epidemiol. 37 (3) 261-270 [2022-03-00; online 2022-01-13]
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Evolution of the G Matrix under Nonlinear Genotype-Phenotype Maps.
Milocco L, Salazar-Ciudad I
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Epigenetics in the Anthropocene: an interview with Oskar Karlsson.
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Oskar Karlsson SciLifeLab Fellow
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Correction to: Toxicogenomics directory of chemically exposed human hepatocytes.
Grinberg M, Stöber RM, Edlund K, ..., Rahnenführer J, Hengstler JG
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Adil Mardinoglu SciLifeLab Fellow
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Comparison Between Portal Vein Perfusion Chemotherapy and Neoadjuvant Hepatic Arterial Infusion Chemotherapy for Resectable Intermediate to Advanced Stage Hepatocellular Carcinoma.
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Coexpression of MTH1 and PMS2 Is Associated with Advanced Disease and Disease Progression after Therapy in Melanoma.
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Clonal Hematopoiesis Is Associated With Higher Risk of Stroke.
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Stroke 53 (3) 788-797 [2022-03-00; online 2021-11-08]
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Autoantibodies and SARS-CoV2 infection: The spectrum from association to clinical implication: Report of the 15th Dresden Symposium on Autoantibodies.
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Abstract 016: Artificially Sweetened Beverage Consumption, Plasma Metabolomics, And Risk Of Type 2 Diabetes Among US Adults
Haslam DE, Wang B, Li J, ..., Hu FB, Bhupathiraju SN
Circulation 145 (Suppl_1) - [2022-03-00; online 2022-03-00]
Clemens Wittenbecher DDLS Fellow
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ASO Visual Abstract: Comparison between Portal Vein Perfusion Chemotherapy and Neoadjuvant Hepatic Arterial Infusion Chemotherapy for Resectable Intermediate/Advanced-Stage Hepatocellular Carcinoma
Pan Y, Mei J, Chen J, ..., Guo R, Xu L
Ann Surg Oncol 29 (3) 2032-2033 [2022-03-00; online 2021-10-21]
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ASO Author Reflections: Neoadjuvant Hepatic Arterial Infusion Chemotherapy with Oxaliplatin, Fluorouracil, and Leucovorin Is an Incredible Helper in Curing Patients with Intermediate-Advanced-Stage and Technically Resectable Hepatocellular Carcinoma.
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ADAR1- and ADAR2-mediated regulation of maturation and targeting of miR-376b to modulate GABA neurotransmitter catabolism.
Widmark A, Sagredo EA, Karlström V, ..., Daniel C, Öhman M
J Biol Chem 298 (3) 101682 [2022-03-00; online 2022-02-03]
Marc Friedländer SciLifeLab Fellow
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A Swedish Genome-Wide Haplotype Association Analysis Identifies a Novel Breast Cancer Susceptibility Locus in 8p21.2 and Characterizes Three Loci on Chromosomes 10, 11 and 16.
Barnekow E, Liu W, Helgadottir HT, ..., Margolin S, Lindblom A
Cancers (Basel) 14 (5) - [2022-02-25; online 2022-02-25]
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Importance of Binding Site Hydration and Flexibility Revealed When Optimizing a Macrocyclic Inhibitor of the Keap1-Nrf2 Protein-Protein Interaction.
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Stratification of the Gut Microbiota Composition Landscape across the Alzheimer's Disease Continuum in a Turkish Cohort.
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Tumorigenic activity of alternative per- and polyfluoroalkyl substances (PFAS): Mechanistic in vitro studies.
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Reclassifying Cancer: Defining tumour cell cycle activity in terms of its tissue of origin in over 13,000 samples
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The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling.
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Dihydroceramide- and ceramide-profiling provides insights into human cardiometabolic disease etiology.
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A retrospective two centre study of Birt-Hogg-Dubé syndrome reveals a pathogenic founder mutation in FLCN in the Swedish population.
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A genome-wide association study in a large community-based cohort identifies multiple loci associated with susceptibility to bacterial and viral infections.
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Potentiating Vγ9Vδ2 T cell proliferation and assessing their cytotoxicity towards adherent cancer cells at the single cell level.
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Machine learning analysis reveals biomarkers for the detection of neurodegenerative diseases
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Abstract P1-07-07: Endoresist: Prognostic and predictive gene profiles in endocrine-resistant breast cancers
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Structure and mechanism of the tripartite ATP-independent periplasmic (TRAP) transporter
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Reliable In Silico Ranking of Engineered Therapeutic TCR Binding Affinities with MMPB/GBSA.
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Evening chronotype is associated with elevated biomarkers of cardiometabolic risk in the EpiHealth cohort: a cross-sectional study.
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Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium.
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Prevalence and correlates of current suicidal ideation in women with premenstrual dysphoric disorder.
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Tree of Mutually Exclusive Oncogenes
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Structures of highly flexible intracellular domain of human α7 nicotinic acetylcholine receptor.
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Simultaneous visualization of DNA loci in single cells by combinatorial multi-color iFISH.
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SM-Omics is an automated platform for high-throughput spatial multi-omics.
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Predictions of Skin Permeability Using Molecular Dynamics Simulation from Two-Dimensional Sampling of Spatial and Alchemical Perturbation Reaction Coordinates
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Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects
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Glioblastoma stem cells express non-canonical proteins and exclusive mesenchymal-like or non-mesenchymal-like protein signatures
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Generation of Realistic Gene Regulatory Networks by Enriching for Feed-Forward Loops.
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Exploring Non-orthosteric Interactions with a Series of Potent and Selective A3 Antagonists.
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Characterization of Metronidazole-Resistant Giardia intestinalis Lines by Comparative Transcriptomics and Proteomics.
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Genomics and adaptation in forest ecosystems.
Neophytou C, Heer K, Milesi P, ..., Rellstab C, Gugerli F
Tree Genet Genomes 18 (2) 12 [2022-02-09; online 2022-02-09]
Pascal Milesi SciLifeLab Fellow
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Protein-lipid interaction at low pH induces oligomerization of the MakA cytotoxin from Vibrio cholerae.
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DeepMP: a deep learning tool to detect DNA base modifications on Nanopore sequencing data.
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Polysome Fractionation for Transcriptome-Wide Studies of mRNA Translation.
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Expression Profiles of Estrogen-Regulated MicroRNAs in Cancer Cells.
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Antibody Validation for Estrogen Receptor Beta.
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Anota2seq Analysis for Transcriptome-Wide Studies of mRNA Translation.
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An Optimized ChIP-Seq Protocol to Determine Chromatin Binding of Estrogen Receptor Beta.
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ZFP207 sustains pluripotency by coordinating OCT4 stability, alternative splicing and RNA export.
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Claudia Kutter SciLifeLab Fellow
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The Evolution of Oxytocin and Vasotocin Receptor Genes in Jawed Vertebrates: A Clear Case for Gene Duplications Through Ancestral Whole-Genome Duplications.
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Author response: Identification of electroporation sites in the complex lipid organization of the plasma membrane
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Possible Functional Roles of Patellamides in the Ascidian-Prochloron Symbiosis.
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Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images
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ExSTED microscopy reveals contrasting functions of dopamine and somatostatin CSF-c neurons along the lamprey central canal.
Jalalvand E, Alvelid J, Coceano G, ..., Grillner S, Testa I
Elife 11 (-) - [2022-02-01; online 2022-02-01]
Ilaria Testa SciLifeLab Fellow
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Effect of General Adiposity and Central Body Fat Distribution on the Circulating Metabolome: A Multicohort Nontargeted Metabolomics Observational and Mendelian Randomization Study.
Ahmad S, Hammar U, Kennedy B, ..., Larsson SC, Fall T
Diabetes 71 (2) 329-339 [2022-02-01; online 2021-11-18]
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Correction: MEIS-WNT5A axis regulates development of fourth ventricle choroid plexus.
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Biomarker-Based Prediction of Longitudinal Tau Positron Emission Tomography in Alzheimer Disease.
Leuzy A, Smith R, Cullen NC, ..., Stomrud E, Hansson O
JAMA Neurol 79 (2) 149-158 [2022-02-01; online 2021-12-21]
DDLS Fellow Jacob W Vogel
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An essential function for autocrine hedgehog signaling in epithelial proliferation and differentiation in the trachea.
Yin W, Liontos A, Koepke J, ..., Stainier DYR, Samakovlis C
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Adverse childhood experiences and resilience among adult women: A population-based study.
Daníelsdóttir HB, Aspelund T, Thordardottir EB, ..., Hauksdóttir A, Valdimarsdóttir UA
Elife 11 (-) - [2022-02-01; online 2022-02-01]
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gmxapi: A GROMACS-native Python interface for molecular dynamics with ensemble and plugin support.
Irrgang ME, Davis C, Kasson PM
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Towards effective beta-cell replacement through understanding and targeting of the autoreactive immune response during onset of type 1 diabetes
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The Skin's Barrier: A Cryo-EM Based Overview of its Architecture and Stepwise Formation.
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Structural amyloid plaque polymorphism is associated with distinct lipid accumulations revealed by trapped ion mobility mass spectrometry imaging.
Michno W, Wehrli PM, Koutarapu S, ..., Hopf C, Hanrieder J
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SciLifeLab Fellow Wojciech Michno
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Rifaximin-α reduces gut-derived inflammation and mucin degradation in cirrhosis and encephalopathy: RIFSYS randomised controlled trial.
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Regulation of pentameric ligand-gated ion channels by a semiconserved cation-pi interaction site
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RNA gradients: Shapers of 3D genome architecture.
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Curr Opin Cell Biol 74 (-) 7-12 [2022-02-00; online 2022-01-05]
Magda Bienko SciLifeLab Fellow
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Population-based study of multisystem inflammatory syndrome associated with COVID-19 found that 36% of children had persistent symptoms.
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Peroxiredoxin 6 protects irradiated cells from oxidative stress and shapes their senescence-associated cytokine landscape.
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Nociceptin/orphanin FQ opioid receptor (NOP) selective ligand MCOPPB links anxiolytic and senolytic effects.
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Multiplex protein screening of biomarkers associated with major bleeding in patients with atrial fibrillation treated with oral anticoagulation: Response to Luo and Bu.
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Molecular modeling investigation of proton coupling in XylE
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Biophysical Journal 121 (3) 468a [2022-02-00; online 2022-02-00]
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Inhibition of prolyl oligopeptidase: A promising pathway to prevent the progression of age-related macular degeneration.
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In silico predictions of the human pharmacokinetics/toxicokinetics of 65 chemicals from various classes using conformal prediction methodology.
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Implementing a Functional Precision Medicine Tumor Board for Acute Myeloid Leukemia.
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Image-based assessment of extracellular mucin-to-tumor area predicts consensus molecular subtypes (CMS) in colorectal cancer.
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IUCNN – Deep learning approaches to approximate species' extinction risk
Zizka A, Andermann T, Silvestro D
Diversity and Distributions 28 (2) 227-241 [2022-02-00; online 2021-12-16]
DDLS Fellow Tobias Andermann
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IL-22 Downregulates Peptidylarginine Deiminase-1 in Human Keratinocytes: Adding Another Piece to the IL-22 Puzzle in Epidermal Barrier Formation.
Padhi A, Srivastava A, Ramesh A, ..., Bergman P, Lysell J
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How can we optimize the development of drugs for wound healing?
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Glutaredoxin 2 promotes SP-1-dependent CSPG4 transcription and migration of wound healing NG2 glia and glioma cells: Enzymatic Taoism.
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Details of G-protein coupled receptor activation via data-driven molecular modeling
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Constant-Ph molecular dynamics simulations of a proton-gated ion channel
Jansen A, Bauer P, Howard RJ, Lindahl E, Hess B
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A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection.
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Protocol: A Multiplexed Reporter Assay to Study Effects of Chromatin Context on DNA Double-Strand Break Repair.
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An in silico analysis identifies drugs potentially modulating the cytokine storm triggered by SARS-CoV-2 infection.
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Sci Rep 12 (1) 1626 [2022-01-31; online 2022-01-31]
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Accurate and rapid microfluidic ELISA to monitor Infliximab titers in patients with inflammatory bowel diseases.
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A global baseline for qPCR-determined antimicrobial resistance gene prevalence across environments
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TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data
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The genomic basis of the plant island syndrome in Darwin’s giant daisies
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The Blood Proteoform Atlas: A reference map of proteoforms in human hematopoietic cells.
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Sequence specificity in DNA binding is mainly governed by association.
Marklund E, Mao G, Yuan J, ..., Deindl S, Elf J
Science (New York, N.Y.) 375 (6579) 442-445 [2022-01-28; online 2022-01-27]
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Role of Cellular Metabolism during Candida-Host Interactions.
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Pathogens 11 (2) - [2022-01-28; online 2022-01-28]
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Target 2035 - update on the quest for a probe for every protein.
Müller S, Ackloo S, Al Chawaf A, ..., Workman P, Arrowsmith CH
RSC Med Chem 13 (1) 13-21 [2022-01-27; online 2021-12-03]
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Limits and potential of combined folding and docking.
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Confocal imaging dataset to assess endothelial cell orientation during extreme glucose conditions.
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A comprehensive evaluation of consensus spectrum generation methods in proteomics
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Why sequence all eukaryotes?
Blaxter M, Archibald JM, Childers AK, ..., Zhang G, Lewin HA
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-20]
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The Earth BioGenome Project 2020: Starting the clock.
Lewin HA, Richards S, Lieberman Aiden E, ..., Yoder AD, Zhang G
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-20]
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Irisin-A Pancreatic Islet Hormone.
Norman D, Drott CJ, Carlsson PO, Espes D
Biomedicines 10 (2) - [2022-01-25; online 2022-01-25]
Daniel Espes SciLifeLab Fellow
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Genome-wide annotation of protein-coding genes in pig.
Karlsson M, Sjöstedt E, Oksvold P, ..., Luo Y, Uhlen M
BMC Biol. 20 (1) 25 [2022-01-25; online 2022-01-25]
Adil Mardinoglu SciLifeLab Fellow
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Genetically Predicted Circulating Copper and Risk of Chronic Kidney Disease: A Mendelian Randomization Study.
Ahmad S, Ärnlöv J, Larsson SC
Nutrients 14 (3) - [2022-01-25; online 2022-01-25]
PubMed DOI Crossref
piRNAs initiate transcriptional silencing of spermatogenic genes during C. elegans germline development.
Cornes E, Bourdon L, Singh M, ..., Li B, Cecere G
Dev. Cell 57 (2) 180-196.e7 [2022-01-24; online 2021-12-17]
PubMed DOI Crossref
BioRssay: an R package for analyses of bioassays and probit graphs.
Karunarathne P, Pocquet N, Labbé P, Milesi P
Parasit Vectors 15 (1) 35 [2022-01-24; online 2022-01-24]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Region-Specific and Age-Dependent Multitarget Effects of Acetylcholinesterase Inhibitor Tacrine on Comprehensive Neurotransmitter Systems.
Fridjonsdottir E, Vallianatou T, Mantas I, ..., Svenningsson P, Andrén PE
ACS chemical biology 17 (1) 147-158 [2022-01-21; online 2021-12-21]
PubMed DOI Crossref
The new era of quantitative cell imaging-challenges and opportunities.
Bagheri N, Carpenter AE, Lundberg E, Plant AL, Horwitz R
Mol. Cell 82 (2) 241-247 [2022-01-20; online 2022-01-23]
PubMed DOI Crossref
Association of clonal hematopoiesis with chronic obstructive pulmonary disease.
Miller PG, Qiao D, Rojas-Quintero J, ..., Ebert BL, COPDGene Study Investigators, National Heart, Lung, and Blood Institute Trans-Omics for Precision Medicine Consortium
Blood 139 (3) 357-368 [2022-01-20; online 2021-12-03]
Abhishek Niroula DDLS Fellow
DOI Crossref
Loss of Y in leukocytes as a risk factor for critical COVID-19 in men
Bruhn-Olszewska B, Davies H, Sarkisyan D, ..., Frithiof R, Dumanski JP
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DOI Crossref
Author response: Protein-lipid interaction at low pH induces oligomerization of the MakA cytotoxin from Vibrio cholerae
Nadeem A, Berg A, Pace H, ..., Uhlin BE, Wai SN
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PubMed DOI Crossref
Accelerated Wound Healing in Minipigs by On-Site Production and Delivery of CXCL12 by Transformed Lactic Acid Bacteria.
Öhnstedt E, Lofton Tomenius H, Frank P, ..., Vågesjö E, Phillipson M
Pharmaceutics 14 (2) - [2022-01-19; online 2022-01-19]
PubMed DOI Crossref
Radiotherapy transiently reduces the sensitivity of cancer cells to lymphocyte cytotoxicity.
Tuomela K, Mukherjee D, Ambrose AR, ..., Honeychurch J, Davis DM
Proc. Natl. Acad. Sci. U.S.A. 119 (3) - [2022-01-18; online 2022-01-20]
PubMed DOI Crossref
Four groups of type 2 diabetes contribute to the etiological and clinical heterogeneity in newly diagnosed individuals: An IMI DIRECT study.
Wesolowska-Andersen A, Brorsson CA, Bizzotto R, ..., Brunak S, IMI DIRECT Consortium
Cell Rep Med 3 (1) 100477 [2022-01-18; online 2022-01-04]
PubMed DOI Crossref
Bacteria Detection at a Single-Cell Level through a Cyanotype-Based Photochemical Reaction.
Dietvorst J, Ferrer-Vilanova A, Iyengar SN, ..., Guirado G, Muñoz-Berbel X
Anal. Chem. 94 (2) 787-792 [2022-01-18; online 2021-12-21]
PubMed DOI Crossref
An Image-Analysis-Based Method for the Prediction of Recombinant Protein Fiber Tensile Strength.
Bäcklund FG, Schmuck B, Miranda GHB, ..., Rydén J, Rising A
Materials (Basel) 15 (3) - [2022-01-18; online 2022-01-18]
Gisele Miranda SciLifeLab Fellow
DOI Crossref
Activation of the Integrated Stress Response overcomes multidrug resistance in FBXW7-deficient cells
Sanchez-Burgos L, Navarro-González B, García-Martín S, ..., Al-Shahrour F, Fernandez-Capetillo O
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DOI Crossref
Divergent selection predating the Last Glacial Maximum mainly acted on macro-phenotypes in Norway spruce
Tiret M, Olsson L, Grahn T, ..., Lundqvist SO, García-Gil MR
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PubMed DOI Crossref
Deciphering Biomarkers for Leptomeningeal Metastasis in Malignant Hemopathies (Lymphoma/Leukemia) Patients by Comprehensive Multipronged Proteomics Characterization of Cerebrospinal Fluid.
Juanes-Velasco P, Galicia N, Pin E, ..., Nilsson P, Fuentes M
Cancers (Basel) 14 (2) - [2022-01-17; online 2022-01-17]
PubMed DOI Crossref
Molecular Mechanisms Leading from Periodontal Disease to Cancer.
Sobocki BK, Basset CA, Bruhn-Olszewska B, ..., Nibali L, Leone A
Int J Mol Sci 23 (2) - [2022-01-16; online 2022-01-16]
PubMed DOI Crossref
Spike-Dependent Opsonization Indicates Both Dose-Dependent Inhibition of Phagocytosis and That Non-Neutralizing Antibodies Can Confer Protection to SARS-CoV-2.
Bahnan W, Wrighton S, Sundwall M, ..., Rasmussen M, Nordenfelt P
Front Immunol 12 (-) 808932 [2022-01-14; online 2022-01-14]
DOI Crossref
CtIP-dependent nascent RNA expression flanking DNA breaks guides the choice of DNA repair pathway
Gómez-Cabello D, Pappas G, Aguilar-Morante D, Dinant C, Bartek J
- - (-) - [2022-01-14; online 2022-01-14]
DOI Crossref
An essential function for autocrine Hedgehog signaling in epithelial proliferation and differentiation in the trachea
Yin W, Liontos A, Koepke J, ..., Stainier DYR, Samakovlis C
- - (-) - [2022-01-14; online 2022-01-14]
PubMed DOI Crossref
Distinct roles for PARP-1 and PARP-2 in c-Myc-driven B-cell lymphoma in mice.
Galindo-Campos MA, Lutfi N, Bonnin S, ..., Sale JE, Yélamos J
Blood 139 (2) 228-239 [2022-01-13; online 2021-08-07]
PubMed DOI Crossref
Tuning Epithelial Cell-Cell Adhesion and Collective Dynamics with Functional DNA-E-Cadherin Hybrid Linkers.
Schoenit A, Lo Giudice C, Hahnen N, ..., Göpfrich K, Cavalcanti-Adam EA
Nano Lett. 22 (1) 302-310 [2022-01-12; online 2021-12-23]
DOI Crossref
Teasing apart the joint effect of demography and natural selection in the birth of a contact zone
Li L, Milesi P, Tiret M, ..., Wu H, Lascoux M
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PubMed DOI Crossref
Integrative Lipidomics and Metabolomics for System-Level Understanding of the Metabolic Syndrome in Long-Term Treated HIV-Infected Individuals.
Olund Villumsen S, Benfeitas R, Knudsen AD, ..., Neogi U, Nielsen SD
Front Immunol 12 (-) 742736 [2022-01-12; online 2022-01-12]
PubMed DOI Crossref
Deoxyribonucleic Acid Encoded and Size-Defined π-Stacking of Perylene Diimides.
Gorman J, Orsborne SRE, Sridhar A, ..., Friend RH, Auras F
Journal of the American Chemical Society 144 (1) 368-376 [2022-01-12; online 2021-12-22]
PubMed DOI Crossref
CCT3-LINC00326 axis regulates hepatocarcinogenic lipid metabolism.
Søndergaard JN, Sommerauer C, Atanasoai I, ..., Barragan I, Kutter C
Gut 71 (10) 2081-2092 [2022-01-12; online 2022-01-12]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
A multi-omics study of circulating phospholipid markers of blood pressure.
Liu J, de Vries PS, Del Greco M F, ..., Dehghan A, Demirkan A
Sci Rep 12 (1) 574 [2022-01-12; online 2022-01-12]
DOI Crossref
Sensitive protein detection using site-specifically oligonucleotide-conjugated nanobodies
Al-Amin RA, Muthelo PM, Abdurakhmanov E, ..., Danielson UH, Landegren U
- - (-) - [2022-01-11; online 2022-01-11]
PubMed DOI Crossref
Experimental Characterization and Mathematical Modeling of the Adsorption of Proteins and Cells on Biomimetic Hydroxyapatite.
Atif AR, La Cis U, Engqvist H, ..., Bagheri S, Mestres G
ACS Omega 7 (1) 908-920 [2022-01-11; online 2021-12-22]
PubMed DOI Crossref
Functional dissection of inherited non-coding variation influencing multiple myeloma risk.
Ajore R, Niroula A, Pertesi M, ..., Houlston R, Nilsson B
Nat Commun 13 (1) 151 [2022-01-10; online 2022-01-10]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.
Hanke L, Das H, Sheward DJ, ..., Murrell B, McInerney GM
Nat Commun 13 (1) 155 [2022-01-10; online 2022-01-10]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
MirGeneDB 2.1: toward a complete sampling of all major animal phyla.
Fromm B, Høye E, Domanska D, ..., Friedländer MR, Peterson KJ
Nucleic Acids Res. 50 (D1) D204-D210 [2022-01-07; online 2021-12-02]
Marc Friedländer SciLifeLab Fellow
DOI Crossref
Integrating Cell Morphology with Gene Expression and Chemical Structure to Aid Mitochondrial Toxicity Detection
Seal S, Carreras-Puigvert J, Trapotsi MA, ..., Spjuth O, Bender A
- - (-) - [2022-01-07; online 2022-01-07]
DOI Crossref
Heparin-derived theranostic nanoprobes overcome the blood brain barrier and target glioma in murine model
Samanta S, Joncour VL, Wegrzyniak O, ..., Cabral H, Oommen OP
- - (-) - [2022-01-07; online 2022-01-07]
PubMed DOI Crossref
DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation.
Quaglia F, Mészáros B, Salladini E, ..., Tosatto SCE, Piovesan D
Nucleic Acids Res. 50 (D1) D480-D487 [2022-01-07; online 2021-12-02]
PubMed DOI Crossref
Controls for Phylogeny and Robust Analysis in Pareto Task Inference.
Adler M, Tendler A, Hausser J, ..., Mayo A, Alon U
Mol. Biol. Evol. 39 (1) - [2022-01-07; online 2021-10-12]
PubMed DOI Crossref
The Chinese pine genome and methylome unveil key features of conifer evolution.
Niu S, Li J, Bo W, ..., Wei H, Wu HX
Cell 185 (1) 204-217.e14 [2022-01-06; online 2021-12-28]
PubMed DOI Crossref
TRP channels: branching out into the fungal kingdom.
Hellmich UA, Delemotte L
Structure 30 (1) 2-4 [2022-01-06; online 2022-01-08]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
Canine Oral Melanoma Genomic and Transcriptomic Study Defines Two Molecular Subgroups with Different Therapeutical Targets.
Prouteau A, Mottier S, Primot A, ..., Derrien T, Hedan B
Cancers (Basel) 14 (2) - [2022-01-06; online 2022-01-06]
PubMed DOI Crossref
Author Correction: Increased burden of ultra-rare structural variants localizing to boundaries of topologically associated domains in schizophrenia.
Halvorsen M, Huh R, Oskolkov N, ..., Sullivan PF, Szatkiewicz JP
Nat Commun 13 (1) 191 [2022-01-05; online 2022-01-05]
PubMed DOI Crossref
A Genomic Perspective Across Earth's Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.
Rodríguez-Gijón A, Nuy JK, Mehrshad M, ..., Woyke T, Garcia SL
Front Microbiol 12 (-) 761869 [2022-01-05; online 2022-01-05]
Sarahi Garcia SciLifeLab Fellow
PubMed DOI Crossref
Evidence of Air and Surface Contamination with SARS-CoV-2 in a Major Hospital in Portugal.
Silva PGD, Gonçalves J, Lopes AIB, ..., Sousa SIV, Mesquita JR
Int J Environ Res Public Health 19 (1) - [2022-01-04; online 2022-01-04]
PubMed DOI Crossref
Effects on weight loss and glycemic control with SAR441255, a potent unimolecular peptide GLP-1/GIP/GCG receptor triagonist.
Bossart M, Wagner M, Elvert R, ..., Nitsche A, Konkar A
Cell Metab. 34 (1) 59-74.e10 [2022-01-04; online 2021-12-20]
Olof Eriksson SciLifeLab Fellow
PubMed DOI Crossref
An open state of a voltage-gated sodium channel involving a π-helix and conserved pore-facing asparagine.
Choudhury K, Kasimova MA, McComas S, Howard RJ, Delemotte L
Biophys. J. 121 (1) 11-22 [2022-01-04; online 2021-12-08]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
APOBEC3 as a driver of genetic intratumor heterogeneity.
Venkatesan S, Angelova M, Bartkova J, ..., Kanu N, Swanton C
Mol Cell Oncol 10 (1) 2014734 [2022-01-03; online 2022-01-03]
DOI Crossref
Zooplanktivore fish body growth responses to browning‐induced light limitation vary over ontogeny, but not with fish density
van Dorst RM, Gårdmark A, Svanbäck R, Huss M
Ecology of Freshwater Fish 31 (1) 17-28 [2022-01-00; online 2021-03-28]
PubMed DOI Crossref
The ubiquitin-dependent ATPase p97 removes cytotoxic trapped PARP1 from chromatin.
Krastev DB, Li S, Sun Y, ..., Ramadan K, Lord CJ
Nat. Cell Biol. 24 (1) 62-73 [2022-01-00; online 2022-01-10]
PubMed DOI Crossref
The revolution evolution.
Amunts A
Nat Plants 8 (1) 14-17 [2022-01-00; online 2021-12-18]
PubMed DOI Crossref
The protein kinase LKB1 promotes self-renewal and blocks invasiveness in glioblastoma.
Caja L, Dadras MS, Mezheyeuski A, ..., Heldin CH, Moustakas A
J. Cell. Physiol. 237 (1) 743-762 [2022-01-00; online 2021-08-05]
PubMed DOI Crossref
Spatial analysis of histology in 3D: quantification and visualization of organ and tumor level tissue environment.
Ruusuvuori P, Valkonen M, Kartasalo K, ..., Nykter M, Latonen L
Heliyon 8 (1) e08762 [2022-01-00; online 2022-01-14]
DDLS Fellow Kimmo Kartasalo
PubMed DOI Crossref
Short- and long-term effects of body weight loss following calorie restriction and gastric bypass on CYP3A-activity - a non-randomized three-armed controlled trial.
Kvitne KE, Robertsen I, Skovlund E, ..., Jansson-Löfmark R, Åsberg A
Clin Transl Sci 15 (1) 221-233 [2022-01-00; online 2021-08-26]
PubMed DOI Crossref
SARS-CoV-2-specific B- and T-cell immunity in a population-based study of young Swedish adults.
Björkander S, Du L, Zuo F, ..., Pan-Hammarström Q, BAMSE COVID-19 study group
J. Allergy Clin. Immunol. 149 (1) 65-75.e8 [2022-01-00; online 2021-10-23]
PubMed DOI Crossref
Revisiting sORFs: overcoming challenges to identify and characterize functional microproteins.
Schlesinger D, Elsässer SJ
FEBS J. 289 (1) 53-74 [2022-01-00; online 2021-02-24]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Regulation of gene expression via translational buffering.
Kusnadi EP, Timpone C, Topisirovic I, Larsson O, Furic L
Biochim Biophys Acta Mol Cell Res 1869 (1) 119140 [2022-01-00; online 2021-09-30]
DOI Crossref
Quantitative predictions from molecular simulations using explicit or implicit interactions
van der Spoel D, Zhang J, Zhang H
Wiley Interdiscip Rev Comput Mol Sci 12 (1) - [2022-01-00; online 2021-06-22]
PubMed DOI Crossref
Putative regulation of macrophage-mediated inflammation by catestatin.
Muntjewerff EM, Christoffersson G, Mahata SK, van den Bogaart G
Trends Immunol. 43 (1) 41-50 [2022-01-00; online 2021-11-27]
Gustaf Christoffersson SciLifeLab Fellow
PubMed DOI Crossref
Publisher Correction: A practical guide to large-scale docking.
Bender BJ, Gahbauer S, Luttens A, ..., Irwin JJ, Shoichet BK
Nat Protoc 17 (1) 177 [2022-01-00; online 2021-12-11]
PubMed DOI Crossref
Prognostic role of tumour-infiltrating lymphocytes and macrophages in relation to MSI, CDX2 and BRAF status: a population-based study of metastatic colorectal cancer patients.
Aasebø K, Bruun J, Bergsland CH, ..., Lothe RA, Sorbye H
Br. J. Cancer 126 (1) 48-56 [2022-01-00; online 2021-10-20]
PubMed DOI Crossref
Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples.
Zhang H, Polavarapu VK, Xing P, ..., Sjöblom T, Chen X
Genome Res 32 (1) 150-161 [2022-01-00; online 2021-07-14]
PubMed DOI Crossref
PRRX1 induced by BMP signaling decreases tumorigenesis by epigenetically regulating glioma-initiating cell properties via DNA methyltransferase 3A.
Tanabe R, Miyazono K, Todo T, ..., Westermark B, Heldin CH
Mol Oncol 16 (1) 269-288 [2022-01-00; online 2021-07-16]
PubMed DOI Crossref
MTH1 as a target to alleviate T cell driven diseases by selective suppression of activated T cells.
Karsten S, Fiskesund R, Zhang XM, ..., Helleday T, Warpman Berglund U
Cell Death Differ. 29 (1) 246-261 [2022-01-00; online 2021-08-29]
PubMed DOI Crossref
Improvement of the performance of anticancer peptides using a drug repositioning pipeline.
Mohammadi E, Tahmoorespur M, Benfeitas R, ..., Mardinoglu A, Sekhavati MH
Biotechnol J 17 (1) e2100417 [2022-01-00; online 2021-11-14]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Identification of dynamic mass-action biochemical reaction networks using sparse Bayesian methods.
Jiang R, Singh P, Wrede F, Hellander A, Petzold L
PLoS Comput Biol 18 (1) e1009830 [2022-01-00; online 2022-01-31]
Prashant Singh SciLifeLab Fellow
PubMed DOI Crossref
High-throughput ex vivo drug testing identifies potential drugs and drug combinations for NRAS-positive malignant melanoma.
Kohtamäki L, Arjama M, Mäkelä S, ..., Murumägi A, Hernberg M
Transl Oncol 15 (1) 101290 [2022-01-00; online 2021-11-24]
PubMed DOI Crossref
Distinct transcription kinetics of pluripotent cell states.
Shao R, Kumar B, Lidschreiber K, ..., Cramer P, Elsässer SJ
Mol Syst Biol 18 (1) e10407 [2022-01-00; online 2022-01-13]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study.
Wittenbecher C, Guasch-Ferré M, Haslam DE, ..., Sun Q, Hu FB
EBioMedicine 75 (-) 103799 [2022-01-00; online 2021-12-31]
Clemens Wittenbecher DDLS Fellow
PubMed DOI Crossref
Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.
Gao W, Gallardo-Dodd CJ, Kutter C
Genome Res 32 (1) 97-110 [2022-01-00; online 2021-12-02]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Artificial intelligence for diagnosis and Gleason grading of prostate cancer: the PANDA challenge.
Bulten W, Kartasalo K, Chen PC, ..., Eklund M, PANDA challenge consortium
Nat. Med. 28 (1) 154-163 [2022-01-00; online 2022-01-13]
DDLS Fellow Kimmo Kartasalo
PubMed DOI Crossref
Allele frequency spectrum of known ankylosing spondylitis associated variants in a Swedish population.
Mathioudaki A, Nordin J, Kastbom A, ..., Lindblad-Toh K, Meadows J
Scand J Rheumatol 51 (1) 21-24 [2022-01-00; online 2021-06-25]
PubMed DOI Crossref
A Modular Workflow for Model Building, Analysis, and Parameter Estimation in Systems Biology and Neuroscience.
Santos JPG, Pajo K, Trpevski D, ..., Hellgren Kotaleski J, Kramer A
Neuroinformatics 20 (1) 241-259 [2022-01-00; online 2021-10-28]
DOI Crossref
Transient Colonising Microbes Promote Gut Dysbiosis and Disease Pathology
Lee S, Meslier V, Bidkhori G, ..., Uhlen M, Shoaie S
- - (-) - [2022-00-00; online 2022-00-00]
DOI Crossref
The Evolution of Blood Protein Profiles of Extremely Preterm Infants After Birth
Zhong W, Danielsson H, Brusselaers N, ..., Uhlen M, Hellstrom AK
SSRN Journal - (-) - [2022-00-00; online 2022-00-00]
DOI Crossref
Synthesis and in Vitro Toxicity Assessment of Different Nano-Calcium Phosphate Nanoparticles
Başak T, Hasan T, Feray B, ..., Di SA, Adil M
Braz. arch. biol. technol. 65 (-) - [2022-00-00; online 2022-00-00]
DOI Crossref
STED and RESOLFT Fluorescent Nanoscopy
Bodén A, Pennacchietti F, Testa I
- - (-) 201-232 [2022-00-00; online 2023-01-03]
DOI Crossref
Long-Term SARS-CoV-2 Surveillance in the Wastewater of Stockholm: What Lessons Can Be Learned from the Swedish Perspective?
Perez-Zabaleta M, Archer A, Khatami K, ..., Williams C, Cetecioglu Z
- - (-) - [2022-00-00; online 2022-00-00]
DOI Crossref
Enhanced Sampling Methods for Molecular Dynamics Simulations [Article v1.0]
Hénin J, Lelièvre T, Shirts MR, Valsson O, Delemotte L
LiveCoMS 4 (1) - [2022-00-00; online 2022-00-00]
Lucie Delemotte SciLifeLab Fellow
DOI Crossref
Diffusion Measurements at the Nanoscale with STED-FCS
Schneider F, Sezgin E
- - (-) 323-336 [2022-00-00; online 2022-08-04]
DOI Crossref
Development of L-Dopa-Containing Diketopiperazines as Blood-Brain Barrier Shuttle
Cornacchia C, Marinelli L, Di Rienzo A, ..., Di Stefano A, Cacciatore I
- - (-) - [2022-00-00; online 2022-00-00]
DOI Crossref
Cholesterol stiffening of lipid membranes and drug interactions: Insights from neutron spin echo and deuterium NMR spectroscopy
Gupta S, Doole FT, Kumarage T, ..., Ashkar R, Brown MF
- - (-) 771-796 [2022-00-00; online 2022-00-00]
DDLS Fellow Milka Doktorova
DOI Crossref
Association between single nucleotide polymorphisms in non-coding regions of the insulin gene and schizophrenia
Melkersson K, Persson B
Neuroscience Applied 1 (-) 100564 [2022-00-00; online 2022-00-00]
SciLifeLab Data Centre
Publications 9.5.1