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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Full-text index only
Onto-Tools: new additions and improvements in 2006.
PMID 17584796 · PMC1933142 · Nucleic acids research · 2007 · 8 claims · 3 setups
OE2GO enables functional profiling for organisms lacking public-domain annotations by allowing users to supply custom GO-format annotation files and OBO-format ontology files
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Has reproduction · 94
Systematic assessment of pathway databases, based on a diverse collection of user-submitted experiments.
PMID 36088548 · PMC9487593 · Briefings in bioinformatics · 2022 · 8 claims · 6 setups
Well-established, hierarchically organized pathway annotation systems (e.g. GO, Reactome, KEGG) yield the best overall enrichment performance despite covering much of the human genome only in general terms.
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Full-text index only
SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny.
PMID 19036790 · PMC2686452 · Nucleic acids research · 2009 · 7 claims · 6 setups
SUPERFAMILY provides structural, functional and evolutionary annotation for proteins from all completely sequenced genomes using SCOP-based hidden Markov models
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Full-text index only
PRIDE: a public repository of protein and peptide identifications for the proteomics community.
PMID 16381953 · PMC1347500 · Nucleic acids research · 2006 · 8 claims · 6 setups
PRIDE is a PSI-compliant public repository for protein and peptide identifications, associated post-translational modifications, and supporting mass spectra from the scientific literature.