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).

• Protocol for transcriptomic and epigenomic analysis of JAK inhibitor sensitivity in IFN-γ-primed human macrophages using ATAC-seq and RNA-seq.

  PMID 41313685 · PMC12702366 · STAR protocols · 2025 · 7 claims · 7 setups

  Has reproduction · 85

  Integrated ATAC-seq and RNA-seq protocol to profile JAK inhibitor sensitivity in IFN-γ-primed human macrophages

  thp-1-derived ifn-γ-primed thp-1 rheumatoid atac-seq rna-seq microarray

• PredTAD: A machine learning framework that models 3D chromatin organization alterations leading to oncogene dysregulation in breast cancer cell lines.

  PMID 34093998 · PMC8142020 · Computational and structural biotechnology journal · 2021 · 7 claims · 8 setups

  Has reproduction · 77

  PredTAD, a Gradient Boosting Machine model using epigenomic and genomic features plus neighboring-bin information, classifies 10 kb genomic regions as TAD boundary or non-boundary across normal and breast cancer cell lines.

  mcf10a t47d gm12878 mcf7 hi-c chip-seq atac-seq