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).

• Bidirectional CRISPR screens decode a GLIS3-dependent fibrotic cell circuit.

  PMID 41501466 · PMC12820784 · Nature · 2026 · 8 claims · 8 setups

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  Inflammation-associated fibroblasts (IAFs), induced by proinflammatory FCN1+IL1B+ macrophages, produce profibrotic IL-11 and drive fibrosis in IBD

  intestinal colon pdgfra+ colonic scrna-seq xenium masson's

• CLUES A Comprehensive Workflow for Integrating Geospatial Data in Biomedical Research.

  PMID 42128886 · PMC13172076 · Nature communications · 2026 · 8 claims · 5 setups

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  CLUES is an open-source, end-to-end workflow that automates selection, download, harmonization, and linkage of open-access geospatial environmental data to individual-level biomedical data without requiring geospatial expertise.

  national copernicus digital norwegian large-scale download spatial

• scComm: a contrastive learning framework for deciphering cell-cell communications at single-cell resolution.

  PMID 41877186 · PMC13134144 · Genome biology · 2026 · 8 claims · 7 setups

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  scComm infers cell-cell communications at single-cell resolution using a data-adaptive L-R weighting module and supervised contrastive learning (SupCon loss) to distinguish significant CCC events from background noise

  simulated spatial liver single-cell simulated spatial scrna-seq

• Cell neighborhood topology directs rare cell population identification.

  PMID 41912521 · PMC13199379 · Nature communications · 2026 · 8 claims · 8 setups

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  RareQ is a framework that quantifies neighborhood connectivity (Q), a cell-specific measure of kNN-graph cliquishness, to detect rare cell populations from single-cell and spatial omics data

  downsampled pbmc brain simulated scrna-seq cite-seq single-cell