Marc Friedländer

Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells.

Tarbier M, Mackowiak SD, Frade J, ..., Gallant CJ, Friedländer MR

pii: 10.1038/s41467-020-19011-5

Nat Commun 11 (1) 5445 [2020-10-28; online 2020-10-28]

Magda Bienko Marc Friedländer

Male swarming aggregation pheromones increase female attraction and mating success among multiple African malaria vector mosquito species.

Mozūraitis R, Hajkazemian M, Zawada JW, ..., Borg-Karlson AK, Emami SN

pii: 10.1038/s41559-020-1264-9

Nat Ecol Evol 4 (10) 1395-1401 [2020-10-00; online 2020-08-03]

Quo vadis microRNAs?

Fromm B, Keller A, Yang X, ..., Peterson KJ, Griffiths-Jones S

pii: S0168-9525(20)30071-8

Trends in Genetics 36 (7) 461-463 [2020-07-00; online 2020-04-16]

Dose and time effects of solar-simulated ultraviolet radiation on the in vivo human skin transcriptome.

Bustamante M, Hernandez-Ferrer C, Tewari A, ..., Nieuwenhuijsen M, Young AR

pmc: PMC7318624

Br. J. Dermatol. 182 (6) 1458-1468 [2020-06-00; online 2019-11-27]

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.

Desvignes T, Loher P, Eilbeck K, ..., Halushka MK, Pantano L

pii: 5556118

Bioinformatics 36 (3) 698-703 [2020-02-01; online 2019-09-11]

MirGeneDB 2.0: the metazoan microRNA complement.

Fromm B, Domanska D, Høye E, ..., Friedländer MR, Peterson KJ

pii: 5603216 pmc: PMC7145716

Nucleic Acids Res. 48 (D1) D1172 [2020-01-08; online 2019-10-24]

Year 2019

Cytoplasmic protein misfolding titrates Hsp70 to activate nuclear Hsf1.

Masser AE, Kang W, Roy J, ..., Friedländer MR, Andréasson C

pii: 47791 pmc: PMC6779467 GEO: GSE78136

Elife 8 (-) - [2019-09-25; online 2019-09-25]

EXOSC10 is required for RPA assembly and controlled DNA end resection at DNA double-strand breaks.

Domingo-Prim J, Endara-Coll M, Bonath F, ..., Huertas P, Visa N

pii: 10.1038/s41467-019-10153-9 pmc: PMC6513946

Nat Commun 10 (1) 2135 [2019-05-13; online 2019-05-13]

Plant microRNAs in human sera are likely contaminants.

Fromm B, Kang W, Rovira C, ..., Friedländer MR, Tosar JP

pii: S0955-2863(18)30535-7

J Nutr Biochem 65 (-) 139-140 [2019-03-00; online 2018-09-05]

Evolutionary Implications of the microRNA- and piRNA Complement of Lepidodermella squamata (Gastrotricha).

Fromm B, Tosar JP, Aguilera F, ..., Bachmann L, Hejnol A

pii: ncrna5010019 pmc: PMC6468455

Noncoding RNA 5 (1) - [2019-02-22; online 2019-02-22]

The Circulating Transcriptome as a Source of Biomarkers for Melanoma.

Solé C, Tramonti D, Schramm M, ..., Middleton MR, Lawrie CH

pii: cancers11010070 pmc: PMC6356785

Cancers (Basel) 11 (1) - [2019-01-10; online 2019-01-10]

Year 2018

Next-generation sequencing reveals two populations of damage-induced small RNAs at endogenous DNA double-strand breaks.

Bonath F, Domingo-Prim J, Tarbier M, Friedländer MR, Visa N

pii: 5168823 pmc: PMC6294500

Nucleic Acids Res. 46 (22) 11869-11882 [2018-12-14; online 2018-11-13]

miRTrace reveals the organismal origins of microRNA sequencing data.

Kang W, Eldfjell Y, Fromm B, ..., Biryukova I, Friedländer MR

pii: 10.1186/s13059-018-1588-9 pmc: PMC6280396

Genome Biol. 19 (1) 213 [2018-12-04; online 2018-12-04]

Control of hepatic gluconeogenesis by Argonaute2.

Yan X, Wang Z, Bishop CA, ..., Willnow TE, Poy MN

pii: S2212-8778(18)30794-4 pmc: PMC6308973

Mol Metab 18 (-) 15-24 [2018-12-00; online 2018-10-09]

microRNA-205-5p is a modulator of insulin sensitivity that inhibits FOXO function.

Langlet F, Tarbier M, Haeusler RA, ..., Friedländer MR, Accili D

pii: S2212-8778(18)30754-3 pmc: PMC6197154

Mol Metab 17 (-) 49-60 [2018-11-00; online 2018-08-11]

Year 2017

Signatures of positive selection reveal a universal role of chromatin modifiers as cancer driver genes

Zapata L, Susak H, Drechsel O, ..., Estivill X, Ossowski S

Sci Rep 7 (1) 13124 [2017-12-00; online 2017-10-13]

The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD

Bustamante M, Hernandez-Ferrer C, Sarria Y, ..., Nieuwenhuijsen M, Young AR

pii: S0013-9351(17)30631-X

Environ. Res. 159 (-) 239-248 [2017-11-00; online 2017-09-18]

Differential Impact of Glucose Administered Intravenously and Orally on Circulating miR-375 Levels in Human Subjects

Yan X, Wang Z, Westberg-Rasmussen S, ..., Gregersen S, Poy MN

J Clin Endocrinol Metab 102 (10) 3749-3755 [2017-10-01; online 2017-07-28]

Survey of 800+ data sets from human tissue and body fluid reveals xenomiRs are likely artifacts

Kang W, Bang-Berthelsen CH, Holm A, ..., Estivill X, Friedländer MR

RNA 23 (4) 433-445 [2017-04-00; online 2017-01-06]

A Fluorophore Fusion Construct of Human Profilin I with Non-Compromised Poly(L-Proline) Binding Capacity Suitable for Imaging

Nejedla M, Li Z, Masser AE, ..., Friedländer MR, Karlsson R

Journal of Molecular Biology 429 (7) 964-976 [2017-04-00; online 2017-04-00]

Year 2016

Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing

Ferreira PG, None , Oti M, ..., Guigó R, Sammeth M

Sci Rep 6 (1) 32406 [2016-10-00; online 2016-09-12]

Cytosolic splice isoform of Hsp70 nucleotide exchange factor Fes1 is required for the degradation of misfolded proteins in yeast

Gowda NKC, Kaimal JM, Masser AE, ..., Friedländer MR, Andréasson C

MBoC 27 (8) 1210-1219 [2016-04-15; online 2016-04-15]

Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson’s disease revealed by deep sequencing analysis

Pantano L, Friedländer MR, Escaramís G, ..., Estivill X, Martí E

- 32 (5) 673-681 [2016-03-01; online 2015-11-02]

Next-generation sequencing of the basal cell carcinoma miRNome and a description of novel microRNA candidates under neoadjuvant vismodegib therapy: an integrative molecular and surgical case study

Sand M, Bechara FG, Gambichler T, ..., Schnabel R, Hessam S

Ann Oncol 27 (2) 332-338 [2016-02-00; online 2015-11-16]

Year 2015

miR-184 Regulates Pancreatic β-Cell Function According to Glucose Metabolism

Tattikota SG, Rathjen T, Hausser J, ..., Friedländer MR, Poy MN

J. Biol. Chem. 290 (33) 20284-20294 [2015-08-14; online 2015-07-07]

Effect of predicted protein-truncating genetic variants on the human transcriptome

Rivas MA, Pirinen M, Conrad DF, ..., Gut IG, Estivill X

Science 348 (6235) 666-669 [2015-05-08; online 2015-05-07]

Year 2014

Tandem RNA Chimeras Contribute to Transcriptome Diversity in Human Population and Are Associated with Intronic Genetic Variants

Greger L, Su J, Rung J, ..., Dermitzakis ET, Brazma A

PLoS ONE 9 (8) e104567 [2014-08-18; online 2014-08-18]

Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing

Cowled C, Stewart CR, Likic VA, ..., Bean AG, Wang Lf

BMC Genomics 15 (1) 682 [2014-00-00; online 2014-00-00]

Evidence for the biogenesis of more than 1,000 novel human microRNAs

Friedländer MR, Lizano E, Houben AJ, ..., Martí E, Estivill X

Genome Biol Genome Biology 15 (4) R57 [2014-00-00; online 2014-00-00]

Year 2013

Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories

't Hoen PAC, Friedländer MR, Almlöf J, ..., Dermitzakis ET, Lappalainen T

Nat Biotechnol 31 (11) 1015-1022 [2013-11-00; online 2013-09-15]

Transcriptome and genome sequencing uncovers functional variation in humans

Lappalainen T, Sammeth M, Friedländer MR, ..., Estivill X, Dermitzakis ET

Nature 501 (7468) 506-511 [2013-09-00; online 2013-09-15]

MicroRNA expression profiling in blood from fragile X-associated tremor/ataxia syndrome patients

Alvarez-Mora MI, Rodriguez-Revenga L, Madrigal I, ..., Estivill X, Milà M

- 12 (6) 595-603 [2013-08-00; online 2013-07-24]

Upregulation of a small vault RNA (svtRNA2-1a) is an early event in Parkinson disease and induces neuronal dysfunction.

Miñones-Moyano E, Friedländer MR, Pallares J, ..., Estivill X, Martí E

pii: 24813 pmc: PMC3849157

RNA Biol 10 (7) 1093-1106 [2013-07-00; online 2013-05-01]

Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery

Li N, You X, Chen T, ..., Hu Y, Chen W

Nucleic Acids Res. 41 (6) 3619-3634 [2013-04-00; online 2013-02-08]

Year 2012

Select microRNAs are essential for early development in the sea urchin

Song JL, Stoeckius M, Maaskola J, ..., Rajewsky N, Wessel GM

Developmental Biology 362 (1) 104-113 [2012-02-00; online 2012-02-00]

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

Friedländer MR, Mackowiak SD, Li N, Chen W, Rajewsky N

Nucleic Acids Res. 40 (1) 37-52 [2012-01-00; online 2011-09-10]

Year 2010

Deciphering the porcine intestinal microRNA transcriptome

Sharbati S, Friedlander MR, Sharbati J, ..., Rajewsky N, Einspanier R

BMC Genomics 11 (1) 275 [2010-00-00; online 2010-00-00]

Year 2009

Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression.

Stoeckius M, Maaskola J, Colombo T, ..., Piano F, Rajewsky N

pii: nmeth.1370 pmc: PMC2756031 mid: NIHMS138678

Nat. Methods 6 (10) 745-751 [2009-10-00; online 2009-09-06]

High-resolution profiling and discovery of planarian small RNAs.

Friedländer MR, Adamidi C, Han T, ..., Kim JK, Rajewsky N

pii: 0905222106 pmc: PMC2703670 GEO: GSE16159

Proc. Natl. Acad. Sci. U.S.A. 106 (28) 11546-11551 [2009-07-14; online 2009-06-29]

Year 2008

A human snoRNA with microRNA-like functions.

Ender C, Krek A, Friedländer MR, ..., Rajewsky N, Meister G

pii: S1097-2765(08)00733-8

Mol. Cell 32 (4) 519-528 [2008-11-21; online 2008-11-26]

Discovering microRNAs from deep sequencing data using miRDeep.

Friedländer MR, Chen W, Adamidi C, ..., Knespel S, Rajewsky N

pii: nbt1394 GEO: GSE10825 GEO: GSE10829

Nat. Biotechnol. 26 (4) 407-415 [2008-04-00; online 2008-04-09]