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 …
OK. So money has microbes on it. Not surprising. And when people find out such information they frequently go overboard in the germophobia. See for example these stories from over the years 1999: Filthy Lucre – Paper Money As A Vector Of Disease 2010: Dirty money 1: Expect germs 2010: How Bad Are Germs on Money 2012: …
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 …
OK I have not tried this out yet but this could be of interest. ATLAS (Automatic Tool for Local Assembly Structures) is a comprehensive multi-omics data analysis pipeline that is massively parallel and scalable. ATLAS contains a modular analysis pipeline for assembly, annotation, quantification and genome binning of metagenomics and metatranscriptomics data and a framework …
Hi All I’d just like to highlight a job we are advertising, to lead the bioinformatic (sequence+variation) analysis of 100,000 M tuberculosis genomes which we are sequencing (WGS), ~50,000 of which will be phenotyped for 12 drugs, and the remainder for some subset. Note the deadline is very soon – Monday 6th March! This project …
With our paper recently accepted for publication and many months of practical application, we’re excited to spread the word about our new tool for characterizing metagenomes, PALADIN! Short for Protein ALignment And Detection INterface, PALADIN was our response to the inherent problem of limited references in shotgun metagenomic sequencing. While DNA barcoding involving 16S, 18S, …
Saw an interesting Tweet check out this novel metagenomics tool to reconstruct thousands of high-quality genomes @ChrisMKSieber #banfieldlab https://t.co/67bk8CbFmP — Alexander Probst (@AlexJProbst) February 13, 2017 And this tool may be of interest – it is from a new preprint in BioRXiv. See abstract below: Microbial communities are critical to ecosystem function. A key objective …
There are a number of cases where determining the relationship between microbes is at the center of a research question. Are the microbes inhabiting a building the same as those inhabiting its tenants? Are the microbes in a hospital room the same as those that colonize newborn babies? Is the E. coli living on a …
There has been some interest in our recent preprint describing Oxford Nanopore MinIONTM sequencing for 16S rRNA microbiome characterization and I was asked to write a post for microbenet on this technology. Disclaimers – this paper is a work in progress – our paper has not yet been peer-reviewed and we are continuing to revise …
Amidst the November/December holiday chaos, myself and co-authors were proud to witness the publication of a neat new paper focused on ATM keypads in New York City. Yes, just like all other surfaces in the Built Environment, those ATM keypads are harboring lots of microbes and bits of orphaned DNA! This ATM keypad study was work that …