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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Inparanoid: a comprehensive database of eukaryotic orthologs.
PMID 15608241 · PMC540061 · Nucleic acids research · 2005 · 8 claims · 4 setups
The Inparanoid algorithm identifies true ortholog clusters by seeding on reciprocal best-matching pairs, gathering inparalogs (post-speciation duplicates) while excluding outparalogs (pre-speciation duplicates)
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InParanoid 6: eukaryotic ortholog clusters with inparalogs.
PMID 18055500 · PMC2238924 · Nucleic acids research · 2008 · 8 claims · 3 setups
InParanoid 6 is an updated eukaryotic ortholog database covering 35 species (34 eukaryotes plus E. coli as outgroup), providing pairwise ortholog clusters with inparalogs for all species pairs.
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Reconstruction of human protein interolog network using evolutionary conserved network.
PMID 17493278 · PMC1885812 · BMC bioinformatics · 2007 · 8 claims · 7 setups
A relative conservation score derived from maximal quasi-cliques in protein interaction networks, combined with other interaction features, can score and rank predicted human interologs for confidence.
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Divergence of exonic splicing elements after gene duplication and the impact on gene structures.
PMID 19883501 · PMC3091315 · Genome biology · 2009 · 8 claims · 7 setups
ESEs and ESSs diverge especially fast shortly after gene duplication, correlating with time since duplication (Ks)