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).

• From 2D to 4D: a containerized workflow and browser to explore dynamic chromatin architecture.

  PMID 41507775 · PMC12870729 · BMC bioinformatics · 2026 · 8 claims · 3 setups

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  The 4DGBWorkflow and 4D Genome Browser (4DGB) are a containerized, cross-platform (macOS/Linux/Windows) toolkit that transforms Hi-C data into 3D chromosome reconstructions and provides comparative visualization

  a549 mus computationally hi-c molecular

• EGASP: the human ENCODE Genome Annotation Assessment Project.

  PMID 16925836 · PMC1810551 · Genome biology · 2006 · 8 claims · 6 setups

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  Best-performing computational gene prediction methods correctly predict at least one transcript for close to 70% of annotated genes in the ENCODE regions.

  encode computational manual rt-pcr