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).

Publications 1.3k Datasets 392.5k Experiments 6

System / cell line: real ✕ Assay: mixture ✕ Clear

nf-core/viralmetagenome: A novel pipeline for untargeted viral genome reconstruction.

PMID 42057295 · PMC13141149 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 5 setups

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nf-core/viralmetagenome is a Nextflow pipeline that automates untargeted reconstruction and variant analysis of eukaryotic DNA and RNA viruses from short-read metagenomic or hybridisation-capture data.

real simulated seven pipeline metagenomic simulated clinical
Detection of rare mutant K-ras DNA in a single-tube reaction using peptide nucleic acid as both PCR clamp and sensor probe.

PMID 16432256 · PMC1345699 · Nucleic acids research · 2006 · 8 claims · 5 setups

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A 17mer PNA spanning K-ras codons 12/13 can serve as both PCR clamp and sensor probe in a single-tube reaction, differentiating all 12 possible point mutations from wild-type by melting temperature shift

wild-type mixture mutant serial melting real-time limit-of-detection
Virus variant quantification with Orthanq.

PMID 41639627 · PMC12930645 · BMC bioinformatics · 2026 · 8 claims · 6 setups

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Orthanq performs identification and uncertainty-aware quantification of known virus variants of any virus species, including in samples with mixed infections

simulated real mixture sequencing sequencing-based pangenome variant
scGACL: a generative adversarial network with multi-scale contrastive learning for accurate single-cell RNA sequencing imputation.

PMID 41632596 · PMC12866930 · Briefings in bioinformatics · 2026 · 8 claims · 6 setups

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scGACL, a GAN integrated with multi-scale contrastive learning, is proposed to overcome the over-smoothing problem in scRNA-seq imputation

simulated real-world scrna-seq scrna-seq clustering gene
Zebrafish whole-adult-organism chemogenomics for large-scale predictive and discovery chemical biology.

PMID 18618001 · PMC2442223 · PLoS genetics · 2008 · 8 claims · 6 setups

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Zebrafish whole-adult-organism chemogenomics generates robust prediction models that discriminate P(H)AHs from ECs across independent experiments

zebrafish computational seven consolidated whole-adult-organism supervised quantitative
Optimizing data-driven excellence: Canada's approach to using pathogen test datasets for quality control, pipeline development and training initiatives.

PMID 41591806 · PMC12847982 · Microbial genomics · 2026 · 8 claims · 5 setups

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Standardized SARS-CoV-2 test datasets (Illumina and Nanopore) were developed as benchmarks for validating sequencing/bioinformatics pipelines across Canadian public health labs

sars-cov-2 extracted nasopharyngeal bioinformatic whole-genome triplex extraction

Experiments

nf-core/viralmetagenome: A novel pipeline for untargeted viral genome reconstruction.

Detection of rare mutant K-ras DNA in a single-tube reaction using peptide nucleic acid as both PCR clamp and sensor probe.

Virus variant quantification with Orthanq.

scGACL: a generative adversarial network with multi-scale contrastive learning for accurate single-cell RNA sequencing imputation.

Zebrafish whole-adult-organism chemogenomics for large-scale predictive and discovery chemical biology.

Optimizing data-driven excellence: Canada's approach to using pathogen test datasets for quality control, pipeline development and training initiatives.