Category: Sequencing

Microbial genome bioinformatics postdoc at UC Berkeley – IGI and Banfield Lab

By Jonathan Eisen   Posted in .Featured Bioinformatics Job postings Sequencing
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Source: Banfield-lab bioinformatics postdoc announcement – Google Docs   Postdoctoral Scholar:  Microbial genome bioinformatics – Innovative Genomics Institute, UC Berkeley The Banfield Lab (https://nanogeoscience.berkeley.edu/) and Innovative Genomics Institute (https://innovativegenomics.org/) at the University of California, Berkeley invite applications for a Postdoctoral Researcher position in the field of genome-resolved metagenomics. Our group specializes in generating novel insights …

Thinking about microbial quantity and function

By Rachel Adams   Posted in Human Microbiome Microbiology of the Built Environment Research Scholarly Literature (Journals, Books, Reports) Sequencing Uncategorized
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One of the hurdles in linking microbial ecology with building science has been incorporating quantitative information about the microorganisms encountered in indoor environments, mainly because the standard high-throughput amplicon approach for community analysis is semi-quantitative, at best. Over the summer, there was a Twitter conversation related to this topic. My take-away from this (what I view …

Call for Proposals: 2019 FICUS JGI-NERSC-KBase Biological Data Science

By Jonathan Eisen   Posted in Bioinformatics Funding Life Science Topics Sequencing
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Of potential interest: Source: FICUS JGI-NERSC-KBase – DOE Joint Genome Institute I am copying some of the announcement below: The Biological Data Science call will enable users to perform state-of-the-art computational research to explore the wealth of genomic and metagenomic data generated worldwide and translate sequence information into biological discovery. Users will have access to …

Paper of interest: Predicting antibiotic resistance from full genome sequences 

By Jonathan Eisen   Posted in Antimicrobials and Resistance Bioinformatics Culturing Sequencing
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This preprint seems like it may be of interest to folks: Precise prediction of antibiotic resistance in Escherichia coli from full genome sequences | bioRxiv Basically, the authors showed that, using a machine learning approach, they can quite accurately predict antibiotic resistance in E. coli from whole genome data. The emergence of microbial antibiotic resistance …

A microbial sequencing discussion course built around a paper and a blog post

By Jonathan Eisen   Posted in .Featured Bioinformatics Culturing Microbiology Sequencing Training and Courses
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So – just a quick post for now.  More details to come.  But I wanted to get a little bit about this out there. For a few years I have been teaching a mid-level course at UC Davis on “DNA sequencing based studies of microbial diversity’.  The course has evolved over the years from a …