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 · 73
Detecting aberrant DNA methylation in Illumina DNA methylation arrays: a toolbox and recommendations for its use.
PMID 37218167 · PMC10208159 · Epigenetics · 2023 · 8 claims · 8 setups
Developed OutlierMeth, an R package that computes probe-specific thresholds and flags DNA methylation outliers from array data
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Has reproduction · 83
Hierarchical classification-based pan-cancer methylation analysis to classify primary cancer.
PMID 38066424 · PMC10709847 · BMC bioinformatics · 2023 · 8 claims · 8 setups
CHCT, a two-tier hierarchical classification tool built from methylation data, accurately classifies primary cancer type across 30 cancer types.
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Full-text index only
Genome Alteration Print (GAP): a tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays.
PMID 19903341 · PMC2810663 · Genome biology · 2009 · 7 claims · 3 setups
GAP is a method for automatic detection of absolute segmental copy number and genotype status from SNP-array cancer genome profiles
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Has reproduction · 82
Ultra-deep multi-oncopanel sequencing of benchmarking samples with a wide range of variant allele frequencies.
PMID 35680918 · PMC9184574 · Scientific data · 2022 · 8 claims · 8 setups
Four reference samples (Sample A, Sample B, Sample C, Sample Spike-in/AC5) were developed with large numbers of high-confidence positive and negative small variant positions to serve as known content for oncopanel performance assessment.