At the recent NAS MOBE meeting there was some discussion of some potential ethical concerns associated with one of the projects discussed (work of Eric Alm where he was collecting samples from urban water systems and trying to infer information about communities and residents). OK #MOBE17 and others out there – I am getting …
The Brito Lab at Cornell University in Ithaca, NY works in the area of systems biology of the human microbiome. We are looking for talented postdocs to fill two open positions for postdoctoral researchers interested in investigating mechanistic linkages between microbes and human health outcomes. Postdoctoral candidates can have an experimental or computational background, or both. One of …
Source: University of Kansas – Job details “The University of Kansas seeks a tenure-track assistant professor in Microbial Environmental Metagenomics and Bioinformatics. This position is a full-time, academic year appointment. The faculty member will conduct research in microbial environmental genomics, metagenomics and bioinformatics leading to publication in appropriate media; procure external funding as appropriate; participate …
Of possible interest – a new paper (on which I am a coauthor) on standards for minimum information about single cell genomes and genomes assembled from metagenomes. See link below: Source: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea : Nature Biotechnology : Nature Research
Microbes in space have been of interest to the folks at various space agencies for as long as we’ve been sending people into space. Rampant mold growth on the Russian Space Station Mir was probably one of the reasons for the decision to “deorbit” the station (a fancy way of describing crashing into the ocean). …
Just saw this story and thought people might be interested in it. Source: Brain-Invading Tapeworm That Eluded Doctors Spotted by New DNA Test – Scientific American The article discusses a new test to be offered by UCSF as well as some other tests from other places that all involve some type of metagenomic sequencing to …
Just a quick post here about an upcoming anvi’o workshop at the Joint Genome Institute (JGI). While I’ve never used anvi’o myself, I know that people rave about it and the visualizations it produces look really cool. It can be used with metagenomic, genomic, and transcriptomic data. Information below copied from the workshop website. …
Source: NIST Challenge — CosmosID – Exploring the Universe of Microbes This could be interesting. NIST & COSMOS ID and ABRF are conducting a metagenomic sequencing methods challenge. From their site: When using metagenomic methods to assess the content of a complex microbial sample, there are many steps in the measurement process where bias might …
Why use Bracken instead of Kraken? by Jennifer Lu and Steven Salzberg Kraken is a very fast, accurate program for classifying metagenomic sequencing data. It takes a set of reads, contigs, or other DNA sequences and for assigns a taxonomic label (species, genus, etc.) to each one. Last year we discovered that some people were …
[View the story “#NeLLi17 – From New Lineages of Life To New Functions Day 2” on Storify]