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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Reconstructing transcriptional regulatory networks through genomics data.
PMID 20048387 · PMC3666560 · Statistical methods in medical research · 2009 · 7 claims · 5 setups
Location data (ChIP-chip/ChIP-seq) alone is insufficient for TRN inference because binding does not imply regulation, TF binding is dynamic across conditions/time, and TRNs involve combinatorial effects of multiple TFs not captured by single-TF ChIP experiments.
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Has reproduction · 74
Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis.
PMID 36725967 · PMC9892028 · Scientific reports · 2023 · 8 claims · 4 setups
JimenaE simulates Boolean networks dynamically and systematically calculates all system states rather than heuristically as SQUAD does.
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Has reproduction · 49
Numb prevents a complete epithelial-mesenchymal transition by modulating Notch signalling.
PMID 29187638 · PMC5721160 · Journal of the Royal Society, Interface · 2017 · 7 claims · 8 setups
Numb (and Numbl) inhibits a full EMT by stabilizing a hybrid E/M phenotype, acting as a 'phenotypic stability factor'.
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Full-text index only
Mutational specificity of gamma-radiation-induced guanine-thymine and thymine-guanine intrastrand cross-links in mammalian cells and translesion synthesis past the guanine-thymine lesion by human DNA polymerase eta.
PMID 18616294 · PMC2646719 · Biochemistry · 2008 · 8 claims · 6 setups
Both G[8,5-Me]T and T[5-Me,8]G intrastrand cross-links are strongly mutagenic in COS-7 and 293T mammalian cells