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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InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale.
PMID 17868464 · PMC2375030 · Genome biology · 2007 · 8 claims · 8 setups
InSite predicts protein-pair-specific binding motifs ('Motif M on protein A binds to protein B') by integrating heterogeneous PPI and motif-motif interaction evidence within a Bayesian network trained by EM
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CROPPER: a metagene creator resource for cross-platform and cross-species compendium studies.
PMID 16995941 · PMC1592126 · BMC bioinformatics · 2006 · 7 claims · 5 setups
CROPPER is a web-based software resource that combines genomic data from heterogeneous sources using identifier and orthologous gene information from the Ensembl database.
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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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Filtering high-throughput protein-protein interaction data using a combination of genomic features.
PMID 15833142 · PMC1127019 · BMC bioinformatics · 2005 · 8 claims · 8 setups
A combination of three genomic features (interacting Pfam domains, GO annotations, sequence homology) using naive Bayesian networks predicts true protein-protein interactions with high sensitivity and good specificity.