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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CIRCE: a scalable Python package to predict cis-regulatory DNA interactions from single-cell chromatin accessibility data.
PMID 41734268 · PMC12987762 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 5 setups
CIRCE re-implements the Cicero co-accessibility algorithm in Python, producing near-identical results while running much faster and using far less memory
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Has reproduction · 79
Epigenetic loss of heterogeneity from low to high grade localized prostate tumours.
PMID 34911933 · PMC8674326 · Nature communications · 2021 · 8 claims · 7 setups
Low-grade (Gleason pattern 3) prostate cancer cells share chromatin accessibility features that are lost in high-grade (Gleason pattern 4) tumours
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Single-cell atlas of the developing Down syndrome brain cortex.
PMID 41545595 · PMC13004680 · Nature medicine · 2026 · 8 claims · 8 setups
RORB/FOXP1-expressing L4-like excitatory neurons are subtype-specifically and dramatically reduced in Down syndrome fetal cortex, especially at later stages (PCW16-20)
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Variations in the transcriptome of Alzheimer's disease reveal molecular networks involved in cardiovascular diseases.
PMID 18842138 · PMC2760875 · Genome biology · 2008 · 8 claims · 6 setups
AD-related genes (APOE, A2M, PON2, MAP4) and CVD-associated genes (COMT, CBS, WNK1) congregate in a single co-expression module, linking AD and CVD at the transcriptional level