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).
-
Has reproduction · 75
Sequencing of human genomes with nanopore technology.
PMID 31015479 · PMC6478738 · Nature communications · 2019 · 8 claims · 7 setups
A novel single-sample, reference panel-free, read-based phasing algorithm built on the STITCH model improves nanopore SNV calling from modest baseline levels.
-
Has reproduction · 97
CRISPRbuilder-TB: "CRISPR-builder for tuberculosis". Exhaustive reconstruction of the CRISPR locus in mycobacterium tuberculosis complex using SRA.
PMID 33667225 · PMC7968741 · PLoS computational biology · 2021 · 8 claims · 7 setups
CRISPRbuilder-TB is a new pipeline that reconstructs MTC CRISPR-Cas loci directly from short SRA reads without requiring genome assembly
-
Has reproduction · 59
The third international hackathon for applying insights into large-scale genomic composition to use cases in a wide range of organisms.
PMID 36262335 · PMC9557141 · F1000Research · 2022 · 7 claims · 3 setups
The third BCM & DNAnexus hackathon produced nine software projects for SV analysis, of which eight are presented in this paper.
-
Has reproduction · 75
Graph-Based Approaches Significantly Improve the Recovery of Antibiotic Resistance Genes From Complex Metagenomic Datasets.
PMID 34690959 · PMC8528159 · Frontiers in microbiology · 2021 · 8 claims · 6 setups
GraphAMR, a Nextflow pipeline that aligns AMR profile HMMs (or AA sequences) to metagenomic assembly graphs via PathRacer, then dereplicates and annotates hits, recovers more and more complete AMR genes than contig-based or read-based methods.