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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Performance of methods to detect genetic variants from bisulphite sequencing data in a non-model species.
PMID 34435438 · PMC9290141 · Molecular ecology resources · 2022 · 6 claims · 6 setups
Bisulphite conversion of unmethylated cytosines to thymines violates strand-complementarity assumptions of SNP callers and confounds true C->T SNPs with unmethylated cytosines, complicating SNP calling from bisulphite sequencing data.
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Benchmarking of methods to analyse data derived from GBS-MeDIP.
PMID 41555215 · PMC12829230 · BMC bioinformatics · 2026 · 7 claims · 4 setups
featureCounts is the most reliable tool for count matrix generation from GBS-MeDIP data, outperforming MEDIPS
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Has reproduction · 74
MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction.
PMID 34172000 · PMC8235852 · BMC genomics · 2021 · 8 claims · 8 setups
MicroPIPE, an end-to-end Nextflow/Singularity-based pipeline built from systematically validated tool choices, produces high-quality complete bacterial genome assemblies without manual intervention.
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Characterization of retrocopies in 663 individuals with esophageal squamous cell carcinoma.
PMID 42058905 · PMC13122676 · iScience · 2026 · 8 claims · 7 setups
RIST, a new pipeline combined with GRIPper, refines retrocopy insertion site breakpoints and target-site duplication (TSD) detection, improving on existing tools (GRIPper2, sideRETRO)