Avenel C

Family name	Avenel
Given name	Christophe
Initials	C
ORCID	ORCID 0000-0002-1835-921X
Affiliations	Science for Life Laboratory, Department of Information Technology, Uppsala University, 752 37 Uppsala, Sweden.

17 publications

PubMed DOI Crossref

Spatiotemporal gene expression and cellular dynamics of the developing human heart.

Lázár E, Mauron R, Andrusivová Ž, ..., Adameyko I, Lundeberg J

Nat. Genet. 57 (11) 2756-2771 [2025-11-00; online 2025-10-29]

PubMed DOI Crossref

Combining spatial transcriptomics with tissue morphology.

Chelebian E, Avenel C, Wählby C

Nat Commun 16 (1) 4452 [2025-05-13; online 2025-05-13]

PubMed DOI Crossref

Streamlining Multiplexed Tissue Image Analysis with PIPΣX: An Integrated Automated Pipeline for Image Processing and EXploration for Diverse Tissue Types.

Mardamshina M, Navarro FB, Casals AM, ..., Wählby C, Lundberg E

bioRxiv - (-) - [2025-05-09; online 2025-05-09]

PubMed DOI Crossref

Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows.

Marco Salas S, Kuemmerle LB, Mattsson-Langseth C, ..., Ishaque N, Nilsson M

Nat. Methods 22 (4) 813-823 [2025-04-00; online 2025-03-13]

PubMed DOI Crossref

A clinical prostate biopsy dataset with undetected cancer.

Chelebian E, Avenel C, Järemo H, ..., Wählby C, Bergh A

Sci Data 12 (1) 423 [2025-03-11; online 2025-03-11]

PubMed DOI Crossref

Points2Regions: Fast, interactive clustering of imaging-based spatial transcriptomics data.

Andersson A, Behanova A, Avenel C, ..., Malmberg F, Wählby C

Cytometry A 105 (9) 677-687 [2024-09-00; online 2024-07-03]

DOI Crossref

Discovery of tumour indicating morphological changes in benign prostate biopsies through AI

Chelebian E, Avenel C, Järemo H, ..., Bergh A, Wählby C

- - (-) - [2024-06-19; online 2024-06-19]

DOI Crossref

Spatial Dynamics of the Developing Human Heart

Lázár E, Mauron R, Andrusivová Ž, ..., Adameyko I, Lundeberg J

- - (-) - [2024-03-14; online 2024-03-14]

DOI Crossref

Single cell-resolution in situ sequencing elucidates spatial dynamics of multiple sclerosis lesion and disease evolution

Langseth CM, Kukanja P, Rubio Rodríguez-Kirby LA, ..., Nilsson M, Castelo-Branco G

- - (-) - [2023-06-30; online 2023-06-30]

PubMed DOI Crossref

Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin.

Li X, Andrusivova Z, Czarnewski P, ..., Lundeberg J, Sundström E

Nat. Neurosci. 26 (5) 891-901 [2023-05-00; online 2023-04-24]

PubMed DOI Crossref

Visualization and quality control tools for large-scale multiplex tissue analysis in TissUUmaps3.

Behanova A, Avenel C, Andersson A, ..., Östman A, Wählby C

Biol Imaging 3 (-) e6 [2023-02-20; online 2023-02-20]

DOI Crossref

Optimizing Xenium In Situ data utility by quality assessment and best practice analysis workflows

Salas SM, Czarnewski P, Kuemmerle LB, ..., Ishaque N, Nilsson M

- - (-) - [2023-02-14; online 2023-02-14]

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

Automated detection of vascular remodeling in tumor-draining lymph nodes by the deep-learning tool HEV-finder.

Bekkhus T, Avenel C, Hanna S, ..., Wählby C, Ulvmar MH

J. Pathol. 258 (1) 4-11 [2022-09-00; online 2022-07-12]

DOI Crossref

TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data

Pielawski N, Andersson A, Avenel C, ..., Solorzano L, Wählby C

- - (-) - [2022-01-28; online 2022-01-28]

DOI Crossref

Developmental origins of cell heterogeneity in the human lung

Sountoulidis A, Salas SM, Braun E, ..., Nilsson M, Samakovlis C

- - (-) - [2022-01-12; online 2022-01-12]

PubMed DOI Crossref

Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer.

Chelebian E, Avenel C, Kartasalo K, ..., Lundeberg J, Wählby C

Cancers (Basel) 13 (19) - [2021-09-28; online 2021-09-28]

DDLS Fellow Kimmo Kartasalo