Category Archives: Microbiology
Full-scale access to microbial Pathogen Detection data in the Cloud!
NCBI’s Pathogen Detection resource now provides selected data on the Google Cloud Platform (GCP) allowing you better access to over 1 million bacterial isolates. Data on GCP include: The tables from the MicroBIGG-E database of anti-microbial resistance (AMR), stress response, virulence genes, and genomic elements and the Pathogen Isolates Browser that are both accessible through … Continue reading Full-scale access to microbial Pathogen Detection data in the Cloud!
December 11 Webinar: Running the NCBI Prokaryotic Genome Annotation Pipeline (PGAP) on your own data
On Wednesday, December 11, 2019 at 12 PM, NCBI staff will present a webinar that will show you how to use NCBI’s PGAP (https://github.com/ncbi/pgap) on your own data to predict genes on bacterial and archaeal genomes using the same inputs … Continue reading
Posted by in bacteriology, Genome, genome annotation, Genomics, Microbiology, PGAP, What's New
December 11 Webinar: Running the NCBI Prokaryotic Genome Annotation Pipeline (PGAP) on your own data
On Wednesday, December 11, 2019 at 12 PM, NCBI staff will present a webinar that will show you how to use NCBI’s PGAP (https://github.com/ncbi/pgap) on your own data to predict genes on bacterial and archaeal genomes using the same inputs … Continue reading
Posted by in bacteriology, Genome, genome annotation, Genomics, Microbiology, PGAP, What's New
New search helps you find prokaryotic proteins
The latest improvement in the NCBI search experience is designed to help you quickly find microbial proteins. Now when you search for a prokaryotic protein name such as recombinase RecA in NCBI’s sequence databases or in the All databases search, … Continue reading
Posted by in bacteriology, Microbiology, Protein, sequences, What's New
Evidence for naming the protein now on non-redundant refseq records (WP_ accessions)
We are now showing the curated evidence used for assigning names and, if possible, gene symbols, publications, and Enzyme Commission numbers on nearly 70% (83 million) microbial RefSeq proteins. This evidence includes a hierarchical collection of curated Hidden Markov Model (HMM)-based … Continue reading
Posted by in bacteriology, Conserved Domains Database (CDD), Microbiology, Protein, RefSeq, What's New
Wrap up of talk by Enid Gonzales-Orta at UC Davis June 11, 2019
Dr. Enid Gonzales-Orta gave a talk at UC Davis June 111, 2019. I posted some notes on Twitter. Here are some links to those.
Main Tweet (others are threaded with this one).
Wakelet:
Main Tweet (others are threaded with this one).
— Jonathan Eisen (@phylogenomics) June 11, 2019Twitter moment: https://twitter.com/i/moments/1154485302490095617?s=13
Wakelet:
Posted by in Enid Gonzales Orta, Microbiology, Sacramento State, TinyEarth
Lab Culture Ep. 18: Alaska state virology lab — Freezing temps, wild animals, and extremely dedicated staff
Every area of our country is unique in ways that make public health laboratory work vary from one state or locality to another. But just as Alaska is different from the lower-48 states in most ways, their public health lab’s work is too. Have you ever considered all the ways it might be different to work in the Alaska state lab in Fairbanks? This episode of Lab Culture reveals some of the many ways in which working in Alaska is unlike anywhere else.
Listen here, in iTunes or wherever you get your podcasts.
Jayme Parker
Manager, Virology Unit, Alaska State Public Health Laboratory (Fairbanks)
Nisha Fowler
Microbiologist, Alaska State Public Health Laboratory (Fairbanks)
Links:
Virology Unit of the Alaska State Public Health Laboratory
Alaska Department of Transportation and Public Facilities — FAQs
Alaska’s permafrost/ice lenses
The post Lab Culture Ep. 18: Alaska state virology lab — Freezing temps, wild animals, and extremely dedicated staff appeared first on APHL Lab Blog.
Posted by in alaska, All Posts, flu, Infectious Diseases, influenza, Lab Culture Podcast, Microbiology, Podcast, rabies, virology
Crowdsourcing plant phenomic data, bacterial niche construction abilities, protocell evolution, microRNA target prediction
Crowdsourcing plant phenomic data, bacterial niche construction abilities, protocell evolution, microRNA target prediction Posted August 13, 2018 by post-info Check out our Editors-in-Chief’s selection of papers from the July issue of PLOS Computational Biology. Crowdsourcing image analysisPosted by in cell biology, computational biology, featured, genetics, halloween, Microbiology, Uta Frith, Xenokeryx
The XV Collection: Perverse Outcomes of Novel Therapies
The XV Collection: Perverse Outcomes of Novel Therapies Posted August 10, 2018 by post-info by Andrew Read Yale professor Steve Stearns once warned that the transition from Young Turk to Old Turkey happens quickly.Posted by in Biology, Debate, Disease, Evolution, featured, infectious disease, Microbiology, open access, plos biology, PLOSBio15, Research
NCBI scientists verify taxonomic identities in prokaryotic genomes
As of March 2018, there were 141,000 prokaryotic genomes in the Assembly database. As this database grows, misassigned prokaryotic genomes becomes a serious problem. Taxonomy misassignment can occur through simple submission error or can accumulate as new information adds greater … Continue reading
Posted by in bacteriology, genome assemblies, Microbiology, Science Features, What's New