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 · 74
Wide-Open: Accelerating public data release by automating detection of overdue datasets.
PMID 28594819 · PMC5464523 · PLoS biology · 2017 · 7 claims · 5 setups
Wide-Open is a general text-mining approach that automatically detects overdue datasets by scanning PubMed articles for dataset accession identifiers and querying repositories to determine if the datasets remain private.
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Has reproduction
Using prototyping to choose a bioinformatics workflow management system.
PMID 33630841 · PMC7906312 · PLoS computational biology · 2021 · 8 claims · 6 setups
Prototyping a subset of a project's actual workflow in candidate software offers a low-cost (time and effort) way to make a more informed software selection than relying solely on reviews and recommendations.
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Has reproduction · 95
The archives are half-empty: an assessment of the availability of microbial community sequencing data.
PMID 32859925 · PMC7455719 · Communications biology · 2020 · 8 claims · 5 setups
More than half of surveyed amplicon sequencing studies were affected by lack of data deposition, improper file formatting, or inconsistent labeling that impede reuse.
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Has reproduction · 92
Analytical code sharing practices in biomedical research.
PMID 38983240 · PMC11232620 · PeerJ. Computer science · 2024 · 8 claims · 4 setups
Nearly half (49.9%) of 453 examined biomedical manuscripts failed to share the analytical code used to generate their results