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 · 78
Emergent dynamics of underlying regulatory network links EMT and androgen receptor-dependent resistance in prostate cancer.
PMID 36851919 · PMC9957767 · Computational and structural biotechnology journal · 2023 · 8 claims · 7 setups
Simulations of the EMT-AR crosstalk network reveal four possible phenotypes: epithelial-sensitive (ES), epithelial-resistant (ER), mesenchymal-resistant (MR), and mesenchymal-sensitive (MS), with MS occurring rarely
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Testing whether genetic variation explains correlation of quantitative measures of gene expression, and application to genetic network analysis.
PMID 18444230 · PMC2729096 · Statistics in medicine · 2008 · 8 claims · 3 setups
A statistical test (delta method and Steiger-Browne optimal linear composites) is developed to test equality of the marginal correlation and the partial correlation of two gene expression traits conditional on a set of covariates.
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Has reproduction · 40
DeepGSEA: explainable deep gene set enrichment analysis for single-cell transcriptomic data.
PMID 38950178 · PMC11236288 · Bioinformatics (Oxford, England) · 2024 · 8 claims · 2 setups
DeepGSEA is an explainable deep gene set enrichment analysis method built on interpretable, prototype-based neural networks.
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Hit selection with false discovery rate control in genome-scale RNAi screens.
PMID 18628291 · PMC2504311 · Nucleic acids research · 2008 · 8 claims · 3 setups
A Bayesian FDR-controlling methodology for hit selection in genome-scale RNAi HTS is proposed, using a direct posterior probability approach analogous to Newton et al.