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 · 83
Functional module detection through integration of single-cell RNA sequencing data with protein-protein interaction networks.
PMID 33138772 · PMC7607865 · BMC genomics · 2020 · 8 claims · 6 setups
scPPIN integrates scRNA-seq-derived p-values with PPINs to detect maximum-weight connected subgraphs (active/functional modules) via an exact Steiner-tree approach
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Has reproduction · 73
treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses.
PMID 34001188 · PMC8127214 · Genome biology · 2021 · 7 claims · 7 setups
treeclimbR proposes multiple candidate resolutions on a hierarchical tree and selects the optimal one in a data-driven way to pinpoint signal branches/leaves of interest.
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Has reproduction · 64
Celline: a flexible tool for one-step retrieval and integrative analysis of public single-cell RNA sequencing data.
PMID 41458999 · PMC12738925 · Frontiers in bioinformatics · 2025 · 8 claims · 7 setups
Celline is a Python package executing an entire scRNA-seq workflow (retrieval, preprocessing, integration, analysis) using single-line commands per step
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Has reproduction · 50
GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring.
PMID 35087491 · PMC8787282 · Frontiers in microbiology · 2021 · 8 claims · 8 setups
GAL08 is a dominant bacterial clade in a neutral hot spring, comprising up to 29.2% of the community by relative read abundance and up to 4.7 × 10^5 16S rRNA gene copies per gram sediment.