IRIS AI and a wondrous rabbit hole of a labelled network of scientific papers

Got an email from the developers of IRIS AI the other day: And decided to play around with it. So I went to our Zotero collection on microbiology of the built environment: From there I got a paper and found it’s URL: Meadow, J. F., Altrichter, A. E., Kembel, S. W., Kline, J., Mhuireach, G., Moriyama, M., Northcutt, …

EPA Webinar and Discussion: What Have We Learned about the Microbiomes of Indoor Environments?

Paula Olsiewski just pointed us to this upcoming webinar and discussion hosted by Brent Stephens.   This presumably relates closely to his article on the same topic which is a must-read. What Have We Learned about the Microbiomes of Indoor Environments? Presented by: Brent Stephens, PhD, Associate Professor of Architectural   Engineering,   Illinois Institute of Technology Date and …

FAQ on Microbiology of Built Environments from the American Academy of Microbiology

There is a report out from the American Academy of Microbiology that is based on the “Microbiology of the Built Environment” colloquium they hosted in September 2015.  The report summary is below: Built environments are the structures that humans create to shelter from the outdoors and provide spaces for living, working, playing, and getting places. …

Videos of talks from “Microbiomes of the Built Environment: From Research to Application”

On April 11 there was a meeting in Washington DC that was part of an effort from a new study being conducted by the National Academies of Science, Medicine, and Engineering on “Microbiomes of the Built Environment”.  Videos and slides from the meeting have now been posted.  I have compiled them below. In addition, I …

Report: Laminate wood flooring risk was underestimated by CDC

There is a new report out Tuesday from the CDC National Center for Environmental Health and the Agency for Toxic Substances and Disease Registry (ATSDR).  It is an update of a report issued on February 10, 2016.  Alex Alexiev wrote about this error in a microBEnet post: CDC Error in Flooring Report. For more on the corrected report …

Indexed PCR Primers Induce Template-Specific Bias in Large-Scale DNA Sequencing Studies

So I had two thoughts when I read the article title “Indexed PCR Primers Induce Template-Specific Bias in Large-Scale DNA Sequencing Studies“… #1:  Ack!  Yet another thing to worry about in the insanely complicated craziness that is 16S amplicon sequencing. #2: I probably shouldn’t be the person to blog about this because I’ve honestly never …

Hospital acquired infections – the good news and the super news (but not super in a good way) 

There are a bunch of stories starting to come out based on some press and paper releases from the CDC yesterday. One that seems well done is this from CIDRAP: CDC notes progress, threat regarding hospital superbugs | CIDRAP. Today’s CDC report focused on the six most concerning antibiotic-resistant bacteria and found better progress against them …

Behind the paper: 16Stimator

In scientific manuscripts, we tell stories of our research, generally in straight-line fashion with clear motivations and results. This type of research is rare (in my experience), with stories, motivations, and applications only realized post hoc. This is the nature of science, and our recent ISMEJ publication is no different. With “16Stimator: statistical estimation of …

High throughput full length 16S sequencing

Microbial ecology has benefited enormously from the development of high throughput sequencing technologies, driving the discovery of massive diversity in environments from the ocean to the human body.  Where sequencing of less than one hundred 16S rRNA genes from several samples used to be common place with cloning and Sanger sequencing, we can now generate tens …