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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Bayesian coestimation of phylogeny and sequence alignment.
PMID 15804354 · PMC1087833 · BMC bioinformatics · 2005 · 7 claims · 3 setups
Alignment and phylogenetic inference are mutually dependent, and treating them as separate sequential steps (align then infer tree) is fundamentally flawed and produces biased, overconfident estimates.
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Positive natural selection in the evolution of human metapneumovirus attachment glycoprotein.
PMID 17931731 · PMC7114232 · Virus research · 2008 · 7 claims · 5 setups
8 amino acid sites in the extracellular domain of hMPV lineage 1a show a higher rate of nonsynonymous than synonymous substitutions (posterior probability >0.95), indicating positive selection.
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EGenBio: a data management system for evolutionary genomics and biodiversity.
PMID 17118150 · PMC1683573 · BMC bioinformatics · 2006 · 7 claims · 7 setups
EGenBio is a web-based system for integrated management, filtering, curation, and visualization of large-scale genomic sequences, alignments, and phylogenetic trees for evolutionary genomics and biodiversity research.
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Structural evolution of the protein kinase-like superfamily.
PMID 16244704 · PMC1261164 · PLoS computational biology · 2005 · 8 claims · 5 setups
All kinases in the superfamily share a 'universal core' domain consisting only of the regions required for ATP binding and the phosphotransfer reaction.