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 · 84
The seeker R package: simplified fetching and processing of transcriptome data.
PMID 36389425 · PMC9648347 · PeerJ · 2022 · 8 claims · 4 setups
seeker is an R package that wraps existing tools to fetch and process RNA-seq and microarray data, providing a standard interface, simple parallelization, and detailed logging
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Has reproduction · 95
In vivo structural characterization of the SARS-CoV-2 RNA genome identifies host proteins vulnerable to repurposed drugs.
PMID 33636127 · PMC7871767 · Cell · 2021 · 8 claims · 8 setups
icSHAPE was used to determine the in vivo and in vitro structural landscape of the SARS-CoV-2 RNA genome in infected Huh7.5.1 cells, plus UTR structures of six other coronaviruses
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Full-text index only
Lost in the world of functional genomics, systems biology, and translational research: is there life after the Milstein award?
PMID 17681845 · PMC1994668 · Cytokine & growth factor reviews · 2007 · 8 claims · 8 setups
Genomic and proteomic approaches provide a comprehensive view of virus-host interactions and advance understanding of innate immunity and interferon/cytokine signaling
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Full-text index only
Accurate detection of somatic single-nucleotide variants from bulk RNA-seq data using RNA-MosaicHunter.
PMID 41505106 · PMC12781890 · Nucleic acids research · 2026 · 6 claims · 8 setups
RNA-MosaicHunter accurately detects sSNVs from bulk RNA-seq with high precision (94.7% in TCGA, 99.3% in cell-line mixture) in default mode