ArticleGenome biology2020
WhatsGNU: a tool for identifying proteomic novelty.
Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Host-pathogen pyrimidine metabolism drives cystic fibrosis lung disease.Nature communications · 2026Article
- Rapid dissemination of Staphylococcus aureus in the neonatal intensive care unit is associated with invasive infection.Nature communications · 2026Article
- Carbapenem-resistantMicrobiology spectrum · 2026Article
- BPSS: a Nextflow pipeline for Bacterial Peptide Sequence Selection to detect protein diversity.Bioinformatics (Oxford, England) · 2026Article
- Integrated epidemiologic investigation and genomic confirmation of a Klebsiella pneumoniae neonatal sepsis outbreak in Botswana.PLOS global public health · 2026Article
- Phenotypic and genetic heterogeneity ofMicrobial genomics · 2025Article
- Evolution of strain diversity and virulence factor repertoire in pediatric Staphylococcus aureus isolates.PloS one · 2025Article
- Genomics unveils country-to-country transmission between animal hospitals of a multidrug-resistant and sequence type 2Microbial genomics · 2024Article
- Parallel evolution of linezolid-resistantMicrobiology spectrum · 2023Article
- Parallel Evolution of Linezolid ResistantbioRxiv : the preprint server for biology · 2023Article
- Pre-epidemic evolution of the MRSA USA300 clade and a molecular key for classification.Frontiers in cellular and infection microbiology · 2023Article
- Article
- Emerging SARS-CoV-2 Diversity Revealed by Rapid Whole-Genome Sequence Typing.Genome biology and evolution · 2021Article
- Article
- Multidrug-Resistant Methicillin-Resistant Staphylococcus aureus Associated with Bacteremia and Monocyte Evasion, Rio de Janeiro, Brazil.Emerging infectious diseases · 2021Article
- Emerging SARS-CoV-2 diversity revealed by rapid whole genome sequence typing.bioRxiv : the preprint server for biology · 2020Article
- WhatsGNU: a tool for identifying proteomic novelty.Genome biology · 2020Article
- Comparative genomics in infectious disease.Current opinion in microbiology · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
To understand diversity in enormous collections of genome sequences, we need computationally scalable tools that can quickly contextualize individual genomes based on their similarities and identify features of each genome that make them unique. We present WhatsGNU, a tool based on exact match proteomic compression that, in seconds, classifies any new genome and provides a detailed report of protein alleles that may have novel functional differences. We use this technique to characterize the total allelic diversity (panallelome) of Salmonella enterica, Mycobacterium tuberculosis, Pseudomonas aeruginosa, and Staphylococcus aureus. It could be extended to others. WhatsGNU is available from https://github.com/ahmedmagds/WhatsGNU.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.