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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Full-text index only
Cleanifier: contamination removal from microbial sequences using spaced seeds of a human pangenome index.
PMID 41252442 · PMC12758600 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 4 setups
Cleanifier is a fast, memory-frugal alignment-free tool for detecting and removing human contamination using gapped k-mers (spaced seeds) and a human pangenome index.
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Has reproduction · 69
TC-hunter: identification of the insertion site of a transgenic gene within the host genome.
PMID 35184734 · PMC8859905 · BMC genomics · 2022 · 7 claims · 4 setups
TC-hunter is an open-source Nextflow pipeline that identifies transgene insertion sites using chimeric reads and discordant read pairs from NGS data.
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Has reproduction
Predicting favorable landing pads for targeted integrations in Chinese hamster ovary cell lines by learning stability characteristics from random transgene integrations.
PMID 33304461 · PMC7710658 · Computational and structural biotechnology journal · 2020 · 7 claims · 5 setups
Expression stability in CHO cell lines is controlled at three levels: choice of integration site, transgene integrity/concatemerization pattern, and stress-related cellular processes.
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Full-text index only
Integrative phenotypic and functional genomic characterization of virulence and antimicrobial resistance in Salmonella enterica isolates from reptiles.
PMID 42245496 · PMC13230192 · Frontiers in microbiology · 2026 · 8 claims · 6 setups
Salmonella culture case positivity rate in reptiles submitted to BADDL (2018-2025) was 16.41%