Includes doi, PMID, and PMCID links.
PATRIC now provides genome assembly and annotation services. Users can bring their sequence reads, upload them into the private workspace, assembly and annotate them, and download the fully annotated genome.
The PATRIC team is committed to supporting and growing the bacterial research communities. To help us identify your specific needs, please take a moment to fill out our short PATRIC survey. Your participation is voluntary, and greatly appreciated.
In this release, we have added 2466 new genomes from NCBI GenBank, bringing the total number of genomes in PATRIC to over 57,000. This release utilizes our newly deployed continuous release process wherein we can release genomes into the database in near real-time from acquisition from GenBank and other sources. The full list of available […]
Peptidoglycan synthesis in Mycobacterium tuberculosis is organized into networks with varying drug susceptibility Publication: PMCID: PMC4620856 [Available on 2016-04-20] Peptidoglycan (PG), a complex polymer composed of saccharide chains crosslinked by short peptides, is a critical component of the bacterial cell wall. PG synthesis has been extensively studied in model organisms but remains poorly understood in mycobacteria, […]
New Genomes and Annotation System Enhancements In this release, we have added 23,052 new genomes from NCBI GenBank, bringing the total number of genomes in PATRIC to over 54,000. The full list of available bacterial genomes can be accessed from the Genomes Tab for all bacteria, and from the Genomes Data Landing Page. As part […]
Tutorial workflows for the workshop: Chicago PATRIC Flyer – Dec. 2015 (1) Creating Genome Groups Exploring your annotated genome in PATRIC Fastq download from ENA Genome Annotation in PATRIC Genome Group Assignment Protein Family Analysis- Protein Family Sorter Protein Family Analysis- Proteome Comparison Protein Family Analysis-Comparative Pathway Viewer Submitting an assembly job to PATRIC Transcriptomics […]
AMR Metadata In this release, we have added additional antimicrobial resistance phenotype related metadata for 949 genomes. The AMR panel data was primarily provided by the NIAID Genomic Centers for Infectious Diseases, which was incorporated into PATRIC after a comprehensive manual curation process. Below is the summary of the top bacterial genera with AMR metadata. […]
On August 31 – September 1, 2015, a two-day PATRIC workshop was conducted at the Houston Methodist Research Institute in Houston, Texas. There were 32 participants, which included graduate students, post docs and professors.This workshop introduced the new PATRIC services (assembly, annotation, proteome comparison, RNA-Seq and metabolic modeling) demonstrated through hands-on tutorials.
Ron Kenyon gave a presentation entitled, “PATRIC: The Bioinformatics Resource Center for Bacterial Disease Research” at the Biomedical Science and Engineering Center (BSEC) 2015 Conference at Oak Ridge National Laboratory in Oak Ridge, Tennessee on August 26, 2015
On August 17-18, 2015, a two-day PATRIC workshop was conducted at the Mayo Clinic in Rochester, Minnesota. Participants included researchers at the Mayo Clinic facility. This workshop introduced the new PATRIC services (assembly, annotation, proteome comparison, RNA-Seq and metabolic modeling) demonstrated through hands-on tutorials.
On July 30-31, 2015, four workshops featuring PATRIC were conducted at the Virginia Bioinformatics Institute in Blacksburg, Virginia. Rebecca Wattam conducted the workshop, which were part of the Biotechnology Educators Conference hosted by Fralin Institute at Virginia Tech. The Biotechnology Educators Conference is part of an effort by Fralin Institute to reach out to high […]
On July 20-21, 2015, a two-day PATRIC workshop was conducted at San Diego State University in San Diego, California. There were 22 participants, which included graduate students, post docs and professors. This workshop continued the format of using step-by-step tutorials that were used as instructional guides for the students, introducing them to the new PATRIC […]