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).
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Has reproduction · 96
Mammary cell gene expression atlas links epithelial cell remodeling events to breast carcinogenesis.
PMID 34079055 · PMC8172904 · Communications biology · 2021 · 8 claims · 8 setups
Integration of five mouse scRNAseq datasets reveals a trifurcating lineage trajectory originating from embryonic mammary stem cells (MaSCs) that differentiates into three epithelial lineages (Basal, L-Alv, L-Hor) via unipotent progenitor clusters
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Has reproduction · 67
Unraveling the timeline of gene expression: A pseudotemporal trajectory analysis of single-cell RNA sequencing data.
PMID 37994351 · PMC10663991 · F1000Research · 2023 · 7 claims · 7 setups
A reproducible R-based workflow combines Seurat (QC, clustering, integration), monocle3 (trajectory inference), and edgeR (pseudo-bulk time course analysis) to perform single-cell pseudotemporal time course analysis.
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Has reproduction · 64
Celline: a flexible tool for one-step retrieval and integrative analysis of public single-cell RNA sequencing data.
PMID 41458999 · PMC12738925 · Frontiers in bioinformatics · 2025 · 8 claims · 6 setups
Celline is a Python package that automates the full scRNA-seq workflow (retrieval, metadata extraction, preprocessing, cell-type annotation, batch correction, trajectory inference) via single-line commands.
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Has reproduction · 75
Dynamic reversal of random X-Chromosome inactivation during iPSC reprogramming.
PMID 31515287 · PMC6771397 · Genome research · 2019 · 7 claims · 6 setups
XCR during iPSC reprogramming is hierarchical, with distinct subsets of X-linked genes reactivating early, intermediate, late, and very late