Joseph Elsherbini

Microbiology student and data visualization enthusiast. Working to understand drivers of marine bacterial blooms.

[Joseph Elsherbini @elsherbinij]

Dragon tongue plot - an alternative way to visualize many distributions. Highlights points in middle quantiles. @ClausWilke @hadleywickham

[Joseph Elsherbini @elsherbinij]

@soniccharge Thanks! I was always curious.

[Fatima Aysha Hussain @fatiaysh]

So very excited to finally share our paper on phage-driven evolution of wild bacteria out​ now in @ScienceMagazine! Huge props and thanks to my entire lab family and dream team, esp. my partner in crime @JavierDubert and my mentors @FredoLeRoux @MartinPolz https://t.co/LLxzDFyNe8

[Dave VanInsberghe @dvaninsberghe]

I'm very pleased to announce that our paper on how diarrheal events trigger long term C. difficile colonization with recurrent blooms is out! Many thanks to my co-authors @elsherbinij , Bernard Varian, Theofilos Poutahidis, Susan Erdman, and @MartinPolz.
https://t.co/Vml31j7HKA

[Joseph Elsherbini @elsherbinij]

If any stats nerds have a moment, I could use help with my (totally not actually about genomes) pope pizzeria stats question:

https://t.co/IoopYQIZJH

[Tami Lieberman @conTaminatedsci]

Our paper is out in @cellhostmicrobe! Led by @Shijie_Zhao, myself, and @ejalm. If you liked it on @biorxivpreprint, get excited for new analyses.

Your gut microbiome changes within you, even during health. What role do mutations play?

https://t.co/i1B0y1Jkgc

[NimwegenLab @NimwegenLab]

This might be the longest I've ever worked on one paper! Puzzled by
patterns in our data, we spend years coming to grips with the role of recombination in bacterial genome evolution. But now we finally have tools to get a quantitative handle on this. https://t.co/YFuCdtohDp

[David Desmarais @Evodaveo]

Our Dept. is developing a semester-length graduate seminar on career/life topics, incl. grant writing, work-life balance, networking, alt careers, etc. Can anyone share syllabi/ideas/resources for this type of program? Principally interested in STEM

[Liam Revell @phytools_liam]

I have posted some shiny web apps for teaching population/evolutionary genetics here: https://t.co/p6OoKP1pr1. Check 'em out!

[Joseph Elsherbini @elsherbinij]

@bjesseshapiro @NTromas You can explicitly test for batch effects either way, right? One consideration in favor of (a) is that as the number of barcodes go up there are more chances for barcode switching - but I don't think it's a huge problem. I like (b) so you can scrutinize ASVs from only one run.

[Kyle Allen @OrthoBME]

Another “sketch”. This one from my stats class — Honest or modest? It may not always look great, but it’s better to keep your data as honest as possible...

[Vanja Klepac-Ceraj @vkclab]

Super interesting talk by @fatiaysh on phage defense, flexible genes #ISME17!

[Joseph Elsherbini @elsherbinij]

Check out @fatiaysh careful work characterizing viral defense strategies of nearly clonal environmental isolates at 15.00 in Hall 2! Very cool mix of genomics, genetics, and phage microbiology. #ISME17

[Justin Silverman @inschool4life]

Just uploaded my slides for my talk today at #JSM2018 (5pm in CC-West 109)

Keywords: Bayesian Generalized Dynamic Linear Models for Analysis of Microbiome time-series with a focus on technical variation

Abstract: https://t.co/iLPjJzqc07
Slides: https://t.co/DgIOsbvvSe

[Christopher Corzett @CCorzett]

I recently joined the #GlobalMicrobiomeConservancy (@globalmicrobiom) team in #Tanzania for one leg of their preliminary global campaign to characterize and preserve the full diversity of the #bacteria of the human gut.

[Joseph Elsherbini @elsherbinij]

@merenbey Very excited to give the new snakemake-powered anvi-run-workflow a try!

[r2d3.us @r2d3us]

A Visual Introduction to Machine learning — Part II is finally here! Hope you enjoy learning about Bias and Variance.

https://t.co/GY8JnylS17

[Xavier Didelot @XavierDidelot]

Pleased to release BactDating, a new fast Bayesian method for creating bacterial dated trees. See the #bioRxiv preprint https://t.co/CVrTEgXxY8 and the software https://t.co/tHB6wWc3WE . Great working with @apemandan @DrSimonHarris @StephenBentley5 & NickCroucher

[Ilana Brito @ilanabrito123]

Seeking talented postdocs to work on computational and/or experimental projects available related to microbiome and immunity, antibiotic resistance, or global health. https://t.co/k0MP7OrHTk Send CV and cover letter! Please retweet!

[Joseph Elsherbini @elsherbinij]

@BCKwon @dartdog @adamperer @januverma Any word on releasing clustervision open source? It looks really slick and widely useful.