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).

• Benchmarking RNA velocity methods across 17 independent studies.

  PMID 41916302 · PMC13106975 · Cell reports methods · 2026 · 8 claims · 6 setups

  Full-text index only

  No single RNA velocity method exhibited superior performance across all accuracy, stability, and usability assessments

  scrna-seq same representative dyngen-simulated velocity cross-method downsampling

• OptiType: precision HLA typing from next-generation sequencing data.

  PMID 25143287 · PMC4441069 · Bioinformatics (Oxford, England) · 2014 · 8 claims · 8 setups

  Has reproduction · 95

  OptiType, an ILP-based HLA genotyping algorithm, produces accurate four-digit HLA-I predictions from NGS data not enriched for the HLA cluster.

  colorectal lymphoblastic hapmap genomes rna-seq low-coverage exome

• Hi-Compass: a depth-aware deep learning framework for predicting cell-type-specific 3D genome organization from single-cell to spatial resolution.

  PMID 41980945 · PMC13250166 · Nature communications · 2026 · 8 claims · 8 setups

  Full-text index only

  Hi-Compass predicts cell-type-specific Hi-C contact maps using only ATAC-seq as cell-type-specific input, plus DNA sequence and a generalized CTCF binding profile

  gm12878 curated bulk training hi-c ctcf matched