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
L2L: a simple tool for discovering the hidden significance in microarray expression data.
PMID 16168088 · PMC1242216 · Genome biology · 2005 · 8 claims · 4 setups
L2L systematically compares a user's differentially expressed gene list against a database of published differentially expressed gene lists to find statistically significant overlaps and generate hypotheses about shared mechanisms
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Full-text index only
MILANO--custom annotation of microarray results using automatic literature searches.
PMID 15661078 · PMC547913 · BMC bioinformatics · 2005 · 7 claims · 4 setups
MILANO annotates microarray gene lists by counting literature co-occurrences of each gene with user-defined secondary terms
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Full-text index only
Evolution of two distinct phylogenetic lineages of the emerging human pathogen Mycobacterium ulcerans.
PMID 17900363 · PMC2098775 · BMC evolutionary biology · 2007 · 8 claims · 4 setups
M. ulcerans has evolved into five InDel haplotypes that separate into two distinct phylogenetic lineages: a 'classical' lineage (Africa, Australia, South East Asia) and an 'ancestral' lineage (Asia, South America, Mexico)
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Has reproduction · 58
A comparative study of techniques for differential expression analysis on RNA-Seq data.
PMID 25119138 · PMC4132098 · PloS one · 2014 · 8 claims · 8 setups
edgeR performs slightly better than DESeq and Cuffdiff2 in terms of the ability to uncover true positives.