Evidence map›Paper›PMID 41251138›Full record

ArticleNucleic acids research2026

BV-BRC: a unified bacterial and viral bioinformatics resource with expanded functionality and AI integration.

Maulik Shukla, Alice R Wattam, Antonio Aleman, Roshni Bhattacharya, Nicole Bowers, Thomas Brettin, Anna Capria, Nicholas Chia, Clark Cucinell, James J Davis and 33 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

13 citing papers in PubMed.

  1. Article
  2. Article
  3. bioRxiv : the preprint server for biology · 2026
    Article
  4. Complete genome sequence ofMicrobiology resource announcements · 2026
    Article
  5. Article
  6. Article
  7. A Clinically Silent Resistance Phenotype That PromotesbioRxiv : the preprint server for biology · 2026
    Article
  8. Draft genome assemblies of threemicroPublication biology · 2026
    Article
  9. Review
  10. Article
  11. Genome-wide investigation of outbreak-associatedFrontiers in microbiology · 2026
    Article
  12. Review
  13. Whole genome sequencing of ceftolozane/tazobactam-resistant, XDRFrontiers in cellular and infection microbiology · 2026
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

43 authors.

Maulik ShuklaConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.ORCID 0009-0002-3396-5725
Alice R WattamBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.ORCID 0000-0001-6018-6490
Antonio AlemanBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Roshni BhattacharyaDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Nicole BowersDivision of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, United States.
Thomas BrettinConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Anna CapriaDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Nicholas ChiaConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Clark CucinellConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
James J DavisConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.ORCID 0000-0003-0104-5852
Donald M DempseyDepartment of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, United States.
Allan DickermanBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Emily M DietrichComputing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, United States.
Ozan GokdemirDivision of Data Science and Learning, Argonne National Laboratory, Argonne, IL 60439, United States.
R Curtis HendricksonDepartment of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, United States.
Ronald W KenyonBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Brian KlahnBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Mehmet KuscuogluDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Elliot J LefkowitzDepartment of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, United States.ORCID 0000-0002-4748-4925
Heng MaConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Dustin MachiBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Catherine MackenDepartment of Statistics, University of Auckland, Auckland 1010, New Zealand.
Carla M MannConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Chunhong MaoBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Marcus NguyenConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Gary J OlsenDepartment of Microbiology, University of Illinois, Urbana, IL 61801, United States.
Robert D OlsonConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Ross OverbeekFellowship for Interpretation of Genomes, Burr Ridge, IL 60527, United States.
Sarah M OwensBiosciences Division, Argonne National Laboratory, Argonne, IL 60439, United States.
Bruce ParrelloDepartment of Computer Science, University of Chicago, Chicago, IL 60637, United States.
Rachel PoretskyDepartment of Biological Sciences, University of Illinois Chicago, Chicago, IL 60607, United States.ORCID 0000-0001-5401-449X
Gordon D PuschFellowship for Interpretation of Genomes, Burr Ridge, IL 60527, United States.
Arvind RamanathanConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Jamal Tyrone SheriffDepartment of Biological Sciences, University of Illinois Chicago, Chicago, IL 60607, United States.
Indresh SinghJ. Craig Venter Institute, Rockville, MD 20850, United States.
Lucy StewartDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Margo VanOeffelenFellowship for Interpretation of Genomes, Burr Ridge, IL 60527, United States.
Veronika VonsteinFellowship for Interpretation of Genomes, Burr Ridge, IL 60527, United States.
Andrew S WarrenBiocomplexity Institute, University of Virginia, Charlottesville, VA 22904, United States.
Andreas WilkeConsortium for Advanced Science and Engineering, University of Chicago, Chicago, IL 60637, United States.
Christian M ZmasekDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Abril ZunigaDepartment of Informatics, J. Craig Venter Institute, La Jolla, CA 92037, United States.
Rick L StevensComputing Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439, United States.ORCID 0000-0002-4268-4020

Funding

The Bacterial and Viral Bioinformatics Resource Center (BV-BRC)U24AI183849 · NIAID · UNIVERSITY OF CHICAGO · PI RICK L. STEVENS · 2024 to 2026
$11.3M
HHS U24AI183849National Institute of Allergy and Infectious DiseasesNIAID NIH HHS U24 AI183849NIH HHS
6 · The paper itself

Abstract

The Bacterial and Viral Bioinformatics Resource Center (BV-BRC; https://www.bv-brc.org) is a comprehensive resource supporting research on bacterial and viral pathogens. It currently hosts over 14 million publicly available genomes and 33 high-throughput bioinformatic analysis services with numerous visual analytic tools allowing researchers to analyze their private data, generate comparisons with public data, and share data and results with colleagues. In recent years, the BV-BRC has added several new analysis services to support rapid comparative genomics and epidemiological analysis, viral genome assembly and annotation, viral subspecies classification, wastewater analysis, and molecular docking. In addition, several existing services have been updated to incorporate state-of-the-art tools, including assembly, annotation, taxonomic classification, metagenomic read mapping, and RNA-seq analysis. A new tool, called BV-BRC Copilot, provides an AI-powered natural-language interface that combines large language models with retrieval-augmented generation to guide users through data exploration, analysis workflows, and knowledge integration. With expanded outbreak tracking pages, training and educator engagement, and continued development of novel AI-driven analytics, BV-BRC continues to provide a unified resource to meet the evolving needs of the global research community.

Indexed as

BacteriaComputational BiologyDatabases, GeneticSoftwareVirusesGenome, BacterialGenome, ViralGenomicsHumans

Identifiers

PMID41251138
PMCPMC12807693

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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.