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Eric Franzosa

@efranzosa.bsky.social
144 followers 110 following 1 posts

Senior Research Scientist at the Harvard Chan School of Public Health. Research and teaching in microbiome and protein bioinformatics. Fan of tabletop games, sci-fi/fantasy, sketch comedy, and organizing.

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Reposted by Eric Franzosa
Aaron Miller Illustration --> GenCon! @aaronbmiller.com · 21/09/2026
Two new angel paintings for Magic. Painted together as one final image for two cards. I used cradled panels so I could easily keep them clamped together while painting. #MTGFRA
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Hutlab @hutlab.bsky.social · 18/06/2026
Bocce-ball with the lab!
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Travis Wheeler @wheelerlab.org · 31/05/2026
Introducing nail - a Rust implementation of profile HMM sequence alignment for proteins. Near-HMMER sensitivity, but a lot faster: www.biorxiv.org/content/10.1... github.com/TravisWheele...
biorxiv.org
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Mart Krupovic @mkrupovic.bsky.social · 11/05/2026
With Eugene Koonin, we wrote a rather comprehensive review on the origin, evolution and organization of the #virosphere. We describe all 10 viral realms and the logic behind them, and so much more. Check it out! comptes-rendus.academie-sciences.fr/biologies/ar...
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shenjiaxian.bsky.social @shenjiaxian.bsky.social · 02/05/2026
Very grateful to receive an AGA Fellow Abstract Award again this year at #DDW2026. Huge thanks to my mentors @longnguyen.bsky.social@hutlab.bsky.social@Andrew_Chan for their support! Presenting tomorrow on multi-kingdom ML for CD vs UC. @amergastroassn.bsky.social #IBD #Microbiome #MachineLearning
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Hutlab @hutlab.bsky.social · 28/04/2026
Huge congrats to Jordan from the lab on an amazing PhD defense yesterday! 🎉 Years of hard work, persistence, and curiosity paid off to produce "Dr. Jordan Jensen"! So proud to have witnessed this milestone—excited to see all the amazing things ahead for you. Onward and upward! 🚀 @hsph.harvard.edu
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nathanwpyle @nathanwpyle.bsky.social · 26/04/2026
so many sports gambling commercials. newsflash: theres a whole documentary about what a mess you make when you bet on sports, it’s called Back to the Future 2
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Hutlab @hutlab.bsky.social · 22/04/2026
EXCITING NEWS 🚨 - Are you interested in microbial community analysis? Join us in Cambridge, MA (July 20–24) for a week-long, hands-on bioBakery course on multi-omics and statistics. Hosted by the Huttenhower Lab & HCMPH. No prior experience needed. Link - huttenhower.sph.harvard.edu/biobakerycou...
huttenhower.sph.harvard.edu
biobakerycourses – The Huttenhower Lab
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Benjamin J. Buchfink @bbuchfink.bsky.social · 25/03/2026
Clustering proteins using DIAMOND is out now @natmethods.nature.com www.nature.com/articles/s41...
nature.com
Clustering the protein universe of life using DIAMOND DeepClust - Nature Methods
DIAMOND DeepClust provides an ultra-fast clustering method for organizing the protein universe of life at low sequence identity, enabling large-scale dimensionality reduction and improving downstream ...
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Claus Wilke @clauswilke.com · 13/02/2026
AI agent goes nuts on open source maintainer after having its pull request denied. This is a pretty insane story. Open source development as we've been used to for the last few decades is likely over. 1/ theshamblog.com/an-ai-agent-...
theshamblog.com
An AI Agent Published a Hit Piece on Me
Summary: An AI agent of unknown ownership autonomously wrote and published a personalized hit piece about me after I rejected its code, attempting to damage my reputation and shame me into acceptin…
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Talia al Ghoul 🏳️‍⚧️ @usili.bsky.social · 28/01/2026
Bilbo looking at his phone top

on bottom is ChatGPT

After all, why not? Why shouldn't I keep it?

You're absolutely right — you found it, it's been with you a long while, and it's only natural to feel fond of something that's served you so well, especially when someone like Gandalf suddenly seems to want it for himself.
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Nature Methods @natmethods.nature.com · 22/01/2026
MaAsLin 3: a comprehensive, flexible framework for microbiome association studies. @hutlab.bsky.social www.nature.com/articles/s41...
nature.com
MaAsLin 3: refining and extending generalized multivariable linear models for meta-omic association discovery - Nature Methods
MaAsLin 3 is a comprehensive and flexible framework for microbiome association studies with expanded toolsets of statistical models, tests and types of inference.
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Segata Lab @cibiocm.bsky.social · 21/01/2026
🥁 NEW Our study on infant gut microbiome and #straintransmission is now published in @nature.com: doi.org/10.1038/s415... 1/10
doi.org
Baby-to-baby strain transmission shapes the developing gut microbiome - Nature
A metagenomic survey of babies attending the first year of nursery detected extensive baby-to-baby microbial strain transmission, pointing to social interactions in infancy as crucial drivers of infan...
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Stephen Turner @stephenturner.us · 07/01/2026
poisonfrogs: Color Palettes Inspired by Neotropical Poison Frogs laurenoconnelllab.github.io/poisonfrogs/ #Rstats
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Luke Plunkett @lukeplunkett.com · 05/01/2026
when google docs keeps trying to complete my sentences for me
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The Onion @theonion.com · 14/11/2025
DNA Sequencing Reveals Hitler Was Type Of Fern
theonion.com
DNA Sequencing Reveals Hitler Was Type Of Fern
BATH, ENGLAND—Saying the discovery shed new light on the infamous German dictator’s life, University of Bath researchers revealed DNA sequencing Friday showing that Adolf Hitler was a type of fern. “A...
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Tomer Ullman @tomerullman.bsky.social · 03/11/2025
Nature suggests you use their "Manuscript Adviser" bot to get advice before submitting I uploaded the classic Watson & Crick paper about DNA structure, and the Adviser had this to say about one of the greatest paper endings of the century:
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Nathan Yau @flowingdata.com · 31/10/2025
Halloween logicals, still the best 10/31 venn
Venn diagrams as jack-o-laterns showing trick/treat logicals: OR, AND, XOR, NOR, NAND, and XNOR
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Sara @sportsandsuffering.bsky.social · 29/10/2025
I regret to inform everyone that my pedantic brain couldn’t let me live until I knew whether or not dodger blue and blue jays blue are the same blue. They are ONE PANTONE NUMBER APART.
a graphic showing the pantone numbers for the two core colors of the toronto blue jays. they are skydome blue (pantone 293) and Stieb Navy (pantone 282)a hat and canvas tote with the pantone number for Dodger Blue (294 C)
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Esther Schindler @estherschindler.bsky.social · 06/10/2025
I just saw someone use the abbreviation “AI;DR” and I’ll be laughing for a while.
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Alex Crits-Christoph @acritschristoph.bsky.social · 06/09/2025
The new -outfmt 20 in BLAST 😍. No more frustrated googling to remember which column is which.....
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Kim Kelly @kimkelly.bsky.social · 21/08/2025
things were better when the computer lived in its own specific room and you only went in there sometimes
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Sean Gibbons 🦠💩 @gibbological.bsky.social · 31/07/2025
You can get an accurate estimate of total bacterial biomass from stool metagenomes by simply normalizing by host read count, without needing any additional measurements. Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal. journals.asm.org/doi/10.1128/... 🧵
journals.asm.org
Metagenomic estimation of absolute bacterial biomass in the mammalian gut through host-derived read normalization | mSystems
In this study, we asked whether normalization by host reads alone was sufficient to estimate absolute bacterial biomass directly from stool metagenomic data, without the need for synthetic spike-ins, ...
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Carly Milligan @carlymilligan.bsky.social · 08/07/2025
This might be my favorite thing I’ve painted to date. I mean, glowy space angel made of stars and nebula stuff, does it get cooler than that? 24 x 18 mixed media and oil on panel AD: Vic Ochoa #mtgart #oilpainting #traditionalart
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Hutlab @hutlab.bsky.social · 20/06/2025
Our lab recently organized a week-long course on Microbiome data analysis using the bioBakery suite. We had almost 60 participants from around the world, eagerly participating and learning. Huge shoutout to Kelsey for spearheading the course and all instructors for teaching fabulously! 🎉
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Lucy D’Agostino McGowan @lucystats.bsky.social · 13/03/2025
Our grandparents survived the measles, what’s the big deal? h/t @kjhealy.co
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Hutlab @hutlab.bsky.social · 28/02/2025
Come join us in Boston for this year's HCMPH Symposium on May 19th! This year's theme is "microbiome in food systems", however, any and all microbiome research is welcome!
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Hutlab @hutlab.bsky.social · 10/02/2025
We will be teaching our annual microbial multi-omics/bioBakery course this spring between June 2nd-6th at the Broad Institute here in Cambridge MA. Check it out and register below. We look forward to seeing you! huttenhower.sph.harvard.edu/biobakery2025/
huttenhower.sph.harvard.edu
biobakery2025 – The Huttenhower Lab
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Hutlab @hutlab.bsky.social · 03/02/2025
Curtis will be giving a free webinar on our new tool MaAslin3 on February 20th. Come check out what's new and the changes we made to improve differential abundance testing in microbiome data! cmbio.io/webinars/maa...
cmbio.io
Webinar| MaAsLin 3 for Microbiome Statistics and Epidemiology
Join us for an enlightening session with Dr Curtis Huttenhower as he delves into the transformative capabilities of this next-generation statistical tool.
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Nature Microbiology @natmicrobiol.nature.com · 02/01/2025
OUT NOW Profiling lateral gene transfer events in the human microbiome using WAAFLE @hutlab.bsky.social @efranzosa.bsky.social @harvardchanschool.bsky.social @longnguyen.bsky.social www.nature.com/articles/s41...
nature.com
Profiling lateral gene transfer events in the human microbiome using WAAFLE - Nature Microbiology
Applying WAAFLE to metagenomic data from human samples reveals over 100,000 putative LGTs not currently found in reference genomes, highlighting an underappreciated microbiome phenomenon.
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Harvard T.H. Chan School of Public Health @hsph.harvard.edu · 09/12/2024
Introducing the new hsph.harvard.edu! Teams at #HarvardChan have created a new website experience to showcase our outstanding research, world-class educational programs, and commitment to implementation + impact while centering our vision of a world with health, dignity, and justice for every human.
hsph.harvard.edu
Home | Harvard T.H. Chan School of Public Health
Harvard Chan School seeks to build a world where everyone can thrive.
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Shivam Bhatt @shivambhatt.bsky.social · 03/12/2024
Four panel comic
1- imagine being a yeast in a fermentation tank
2- it must be so fun at first. Sugar everywhere, a giant party.
3- but then suddenly the sugar is gone and everyone suffocates in their own excrement 
4- on an unrelated topic I've decided to leave Twitter
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