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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Discovery of protein-protein interactions using a combination of linguistic, statistical and graphical information.
PMID 15941473 · PMC1164402 · BMC bioinformatics · 2005 · 8 claims · 5 setups
A combined linguistic+statistical+rule-based method achieves precision 0.61 and recall 0.97 (f=0.74) detecting yeast protein-protein interactions across 12,300 Medline abstracts.
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SuperCYP: a comprehensive database on Cytochrome P450 enzymes including a tool for analysis of CYP-drug interactions.
PMID 19934256 · PMC2808967 · Nucleic acids research · 2010 · 8 claims · 6 setups
SuperCYP is a comprehensive relational database aggregating CYP enzyme, drug metabolism, SNP/mutation, and structural information from literature and web resources.
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Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome.
PMID 15892868 · PMC1175952 · Genome biology · 2005 · 8 claims · 6 setups
Two quantitative benchmarks (functional-annotation-based and physical-interaction-based log likelihood ratio scores) can measure relative accuracy of human PPI datasets
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Building disease-specific drug-protein connectivity maps from molecular interaction networks and PubMed abstracts.
PMID 19649302 · PMC2709445 · PLoS computational biology · 2009 · 7 claims · 4 setups
A computational framework can build disease-specific drug-protein connectivity maps by integrating protein interaction networks and PubMed literature mining, without gene expression profiles from drug perturbation experiments