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 · 86
Improving the annotation of the cattle genome by annotating transcription start sites in a diverse set of tissues and populations using Cap Analysis Gene Expression sequencing.
PMID 37216666 · PMC10411599 · G3 (Bethesda, Md.) · 2023 · 7 claims · 8 setups
CAGE sequencing of 24 tissues from 3 cattle populations (dairy, beef-dairy cross, Kinsella composite) defines TSS and coexpressed short-range enhancers in the ARS-UCD1.2 reference genome
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Has reproduction · 70
Predicting enhancers in mammalian genomes using supervised hidden Markov models.
PMID 30917778 · PMC6437899 · BMC bioinformatics · 2019 · 8 claims · 8 setups
eHMM predicts enhancers with high precision and recall comparable to state-of-the-art methods and consistently outperforms them in accuracy and resolution
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Full-text index only
Atlas of nascent RNA transcripts reveals tissue-specific enhancer to gene linkages.
PMID 40281430 · PMC12032694 · BMC genomics · 2025 · 7 claims · 8 setups
A large repository of nascent run-on RNA-seq samples (DBNascent) was assembled and uniformly processed to identify sites of bidirectional transcription genome-wide.
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Full-text index only
Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness.
PMID 19895688 · PMC3091318 · Genome biology · 2009 · 8 claims · 6 setups
MacroRNA and lincRNA exons are subject to the same relatively low degree of sequence constraint, contrary to prior reports that lincRNAs are far more conserved