Category: Bioinformatics

Open Postdoc Position at University of Oregon BioBE

By wymelenberg   Posted in .Featured BioBE Center Blog Posts Bioinformatics Built Environment Topics Job postings Microbiology of the Built Environment MoBE Postdoctoral Fellowship News
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The Biology and the Built Environment Center (BioBE) is currently seeking a post-doc to investigate fundamental questions surrounding the role of microorganisms (bacteria, viruses, fungi archaea, and protists) in the built environment and in relation to human health outcomes. Learn more and apply here. (https://careers.uoregon.edu/en-us/job/527294/post-doctoral-scholar-in-microbial-ecology)

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 …

Report on 2020 Spacecraft-Associated Genome Analysis (SAGAn) workshop at NASA JPL

By David Coil   Posted in .Featured Bioinformatics Microbiology of the Built Environment Space Transportation
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So this last week, we ran a workshop on bacterial genomics at the Jet Propulsion Laboratory (JPL).  Who is “we”?  An amazing collaboration across several institutions.  The whole thing was initiated by Dr. Parag Vaishampayan (NASA-JPL), who contacted myself (UC Davis), Dr. Elinne Becket (Cal State San Marcos), and Dr. Kenisha Johnson (Alabama A&M) about …

Journal Club: “Pre- and post-sequencing recommendations for functional annotation of human fecal metagenomes”

By David Coil   Posted in .Featured Bioinformatics Scholarly Literature (Journals, Books, Reports)
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This is a pre-print that just came out from several UC Davis colleagues.  I actually think the title is a bit misleading because these recommendations are a lot broader than just human fecal metagenomes.  Definitely worth a read! Abstract below: Background Shotgun metagenomes are often assembled prior to annotation of genes which biases the functional …

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 …

Assistant Professor in Soil Microbiomics

By momedinamunoz   Posted in Bioinformatics Job postings Microbiology Plant Microbiomes Research
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Assistant Professor Position in Soil  Microbiomics with a 75% research, 25% teaching appointment. The Department of Ecosystem Science and Management seeks candidates interested in conducting research to understand the distribution, composition, diversity, and functional impact of microbial communities in soil-plant habitats. We seek individuals with diverse interests in soil microbiomes and in teaching related courses. …

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 …