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 · 88
pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS).
PMID 31035919 · PMC6489300 · BMC bioinformatics · 2019 · 8 claims · 8 setups
pwrEWAS is a user-friendly tool for comprehensive power estimation for two-group EWAS comparisons using Illumina Human Methylation BeadChip data.
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Has reproduction · 91
A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles.
PMID 32111252 · PMC7049190 · Genome medicine · 2020 · 8 claims · 8 setups
DeClust is a reference-profile-free deconvolution method that incorporates molecular subtyping directly into the deconvolution process, outputting cohort-level cancer subtype and stromal reference profiles rather than per-individual profiles
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Full-text index only
A Hidden Markov Model to estimate population mixture and allelic copy-numbers in cancers using Affymetrix SNP arrays.
PMID 17996079 · PMC2206057 · BMC bioinformatics · 2007 · 8 claims · 7 setups
An HMM using paired germline genotype calls and tumour allelic SNP intensities can estimate allele-specific copy-numbers, distinguishing events like uniparental disomy from allelic imbalance.
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Evolutionary modeling of rate shifts reveals specificity determinants in HIV-1 subtypes.
PMID 18989394 · PMC2566816 · PLoS computational biology · 2008 · 7 claims · 4 setups
A novel Bayesian method, RASER, can detect site-specific evolutionary rate shifts and the lineages in which they occurred without pre-specifying candidate lineages.