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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Has reproduction · 49
oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets.
PMID 22973536 · PMC3429929 · G3 (Bethesda, Md.) · 2012 · 8 claims · 6 setups
oPOSSUM-3 is a web-accessible system that identifies over-represented TFBS and TFBS families in DNA sequences of co-expressed genes or in sequences from high-throughput methods such as ChIP-Seq.
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PathogenMIPer: a tool for the design of molecular inversion probes to detect multiple pathogens.
PMID 17105657 · PMC1657037 · BMC bioinformatics · 2006 · 6 claims · 5 setups
PathogenMIPer designs unique, target-specific MIP probes, assembling all probe components (target-specific sequences, barcodes, universal primers, restriction sites) into ready-to-order probes for any genome.
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ARED 3.0: the large and diverse AU-rich transcriptome.
PMID 16381826 · PMC1347415 · Nucleic acids research · 2006 · 7 claims · 6 setups
ARED 3.0 computationally mapped more than 4000 ARE-mRNAs to the human genome, representing 5-8% of human genes.
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Comparative genomics of Helicobacter pylori isolates recovered from ulcer disease patients in England.
PMID 15916705 · PMC1180443 · BMC microbiology · 2005 · 8 claims · 8 setups
H. pylori strains from England are genetically distinct from strains obtained from other countries based on virulence gene analysis (cagT, cagE, cagA, vacA, iceA, oipA, babB)