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).

• Lift&Add-rapid and robust addition of new species to alignments of conserved non-coding sequences.

  PMID 42203687 · PMC13224966 · Bioinformatics (Oxford, England) · 2026 · 7 claims · 5 setups

  Full-text index only

  Lift&Add, a Snakemake/bash workflow combining UCSC liftOver, Liftoff, and MAFFT, enables rapid addition of new genome sequences to existing multi-species alignments of conserved elements without requiring new whole-genome alignments.

  mm10 opossum newly vertebrate phastcons ucsc liftoff

• High-throughput chromatin information enables accurate tissue-specific prediction of transcription factor binding sites.

  PMID 18988630 · PMC2662491 · Nucleic acids research · 2009 · 8 claims · 8 setups

  Full-text index only

  Incorporating H3K4me3 chromatin modification estimates greatly improves the accuracy of in silico prediction of in vivo TF binding for a wide range of TFs in human and mouse

  embryonic neural t-cells mm8 chip-seq chip-chip pwm

• A chromosome-level reference genome and pangenome for barn swallow population genomics.

  PMID 36662619 · PMC10044405 · Cell reports · 2023 · 8 claims · 8 setups

  Full-text index only

  A chromosome-level, karyotype-validated reference genome (bHirRus1) was assembled using the VGP pipeline combining PacBio CLR, 10x Linked-Reads, Bionano optical maps, and Hi-C data

  single barn bhirrus1 rustica genome cytogenetic reference-free