Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Decomposition of the pangenome matrix reveals a structure in gene distribution in the Escherichia coli species.

mSphere - 28 Jan 2025

Chauhan Siddharth M, Ardalani Omid, Hyun Jason C, Monk Jonathan M, Phaneuf Patrick V, Palsson Bernhard O

Abstract excerpt

Thousands of complete genome sequences for strains of a species that are now available enable the advancement of pangenome analytics to a new level of sophistication. We collected 2,377 publicly available complete genomes of Escherichia coli for detailed pangenome analysis. The core genome and accessory genomes consisted of 2,398 and 5,182 genes, respectively. We developed a machine learning approach to define...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Escherichia coli
Share to Genetic Variation

Methodology Data sources Editorial policy Privacy Delete account & data About Contact Helena Bioinformatics

Share to Genome, Bacterial

Share to Machine Learning

Share to Multilocus Sequence Typing

Share to Phylogeny

Share to Shigella

Source

Open in PubMed Open full text

Identifiers

PMID: 39745367
DOI: 10.1128/msphere.00532-24
PMCID: PMC11774025

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 17 Oct 2026.

Related research

Semantic proximity does not establish scientific evidence. Graph snapshot: 2026-09-29.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Decomposition of the pangenome matrix reveals a structure in gene distribution in the Escherichia coli species.PMID 39745367Read ↗

Pangenome evolution in <i>Escherichia coli</i> is sequence type, not phylogroup, specificSemantic proximity Read ↗

Different evolutionary trends form the twilight zone of the bacterial pan-genomeSemantic proximity Read ↗

Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes.Semantic proximity Read ↗

A comprehensive and high-quality collection of <i>E. coli</i> genomes and their genesSemantic proximity Read ↗

FDA Escherichia coli Identification (FDA-ECID) Microarray: a Pangenome Molecular Toolbox for Serotyping, Virulence Profiling, Molecular Epidemiology, and Phylogeny.Semantic proximity Read ↗

VirulenceFinder for Enterococcus faecium and Enterococcus lactis : an enhanced database for detection of putative virulence markers by using whole-genome sequencing dataSemantic proximity Read ↗

Pangenomic decomposition reveals lineage-specific immune-evasion and virulence architectures in group A <i>Streptococcus</i>Semantic proximity Read ↗

Integration of metagenome-assembled genomes with clinical isolates reveals genomic signatures of <i>Klebsiella pneumoniae</i> in carriage and diseaseSemantic proximity Read ↗

Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions.Semantic proximity Read ↗

Revealing the spectrum of extended-core gene variation in the Escherichia coli pan-genome.Semantic proximity Read ↗

An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates.Semantic proximity Read ↗

Comparative pangenomics: analysis of 12 microbial pathogen pangenomes reveals conserved global structures of genetic and functional diversitySemantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.