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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Ab initio identification of putative human transcription factor binding sites by comparative genomics.
PMID 15865625 · PMC1097714 · BMC bioinformatics · 2005 · 8 claims · 5 setups
An integrated algorithm combining human-mouse genomic comparison, motif overrepresentation, and coregulation filters (GO annotation and microarray coexpression) can identify candidate transcription factor binding sites genome-wide
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SNP@Promoter: a database of human SNPs (single nucleotide polymorphisms) within the putative promoter regions.
PMID 18315851 · PMC2259403 · BMC bioinformatics · 2008 · 8 claims · 4 setups
SNP@Promoter is a database of human SNPs within putative promoter regions and predicted transcription factor binding sites
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The MAPPER database: a multi-genome catalog of putative transcription factor binding sites.
PMID 15608292 · PMC540057 · Nucleic acids research · 2005 · 8 claims · 6 setups
Built a library of 1134 HMM models (359 matrix-derived, 718 factor-derived, 57 JASPAR-derived), corresponding to 863 distinct TF names, from TRANSFAC and JASPAR binding site data
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Web-based resources for comparative genomics.
PMID 16197736 · PMC3525128 · Human genomics · 2005 · 8 claims · 8 setups
Comparative genomics is an indispensable tool for identifying functional genome elements and exploring evolutionary genome dynamics