Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 4

System / cell line: scrna-seq ✕ Assay: loss ✕ Clear

Allele-specific immune gene quantification and expression analysis in single-cell RNA-seq data.

PMID 41229397 · PMC12604667 · NAR genomics and bioinformatics · 2025 · 8 claims · 4 setups

Has reproduction · 75

scIGD is a Snakemake workflow that automates HLA allele-typing and allele-specific expression quantification from scRNA-seq data

aida merkel-cell 20k myeloma scrna-seq
Immunoregulatory Roles of Tumor-Originated Pericytes Identified by Single-Cell Analysis in Glioblastoma.

PMID 41001759 · PMC12713092 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025 · 8 claims · 8 setups

Has reproduction

CD146 (MCAM) is a superior surface marker for sorting GBM pericytes, labeling nearly all PDGFRβ+ pericytes with strong specificity, unlike NG2 which labels fewer vessel-associated pericytes.

facs-sorted frozen dissociated scrna-seq scrna-seq immunofluorescence fluorescence-activated
Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

PMID 38892065 · PMC11172245 · International journal of molecular sciences · 2024 · 8 claims · 8 setups

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HR+/HER2-BC tumor epithelial cells comprise four single-cell-defined functional (SC-f) subtypes: migratory, secretory, proliferating, and dysfunctional.

hr+ epcam-sorted tumor tcga-brca droplet sidr-seq bulk
Integrative analysis of single-cell RNA-seq and gut microbiome metabarcoding data elucidates macrophage dysfunction in mice with DSS-induced ulcerative colitis.

PMID 38879692 · PMC11180211 · Communications biology · 2024 · 7 claims · 7 setups

Has reproduction · 69

Epithelial cell populations are significantly reduced during acute DSS colitis, reflecting tissue damage, with partial recovery in chronic colitis

colon gut single-cell 16s western

Experiments

Allele-specific immune gene quantification and expression analysis in single-cell RNA-seq data.

Immunoregulatory Roles of Tumor-Originated Pericytes Identified by Single-Cell Analysis in Glioblastoma.

Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

Integrative analysis of single-cell RNA-seq and gut microbiome metabarcoding data elucidates macrophage dysfunction in mice with DSS-induced ulcerative colitis.