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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Gene-disease relationship discovery based on model-driven data integration and database view definition.
PMID 19042916 · PMC2639000 · Bioinformatics (Oxford, England) · 2009 · 8 claims · 4 setups
Explicit gene–disease relationships can be formulated as candidate gene definitions (e.g., co-localization, dysregulation, functional similarity) that may include intermediary orthologous or interacting genes
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Has reproduction · 100
FA-nf: A Functional Annotation Pipeline for Proteins from Non-Model Organisms Implemented in Nextflow.
PMID 34681040 · PMC8535801 · Genes · 2021 · 8 claims · 4 setups
FA-nf, implemented in Nextflow with Docker/Singularity containerization, integrates NCBI BLAST+, DIAMOND, InterProScan, and KEGG (KAAS/KofamKOALA) into a single functional annotation pipeline.
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Full-text index only
MACSIMS: multiple alignment of complete sequences information management system.
PMID 16792820 · PMC1539025 · BMC bioinformatics · 2006 · 8 claims · 5 setups
MACSIMS is a multiple alignment-based information management system combining knowledge-based database mining with ab initio sequence predictions
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Full-text index only
SNPHunter: a bioinformatic software for single nucleotide polymorphism data acquisition and management.
PMID 15774022 · PMC1274256 · BMC bioinformatics · 2005 · 7 claims · 3 setups
SNPHunter allows ad hoc-mode and batch-mode SNP search, automatic SNP filtering, and retrieval of SNP data (physical position, function class, flanking sequences at user-defined lengths, heterozygosity) from NCBI dbSNP