Joel Babdor
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joelbabdor.bsky.social
Joel Babdor
@joelbabdor.bsky.social
6.2K followers 490 following 120 posts
Asst. Prof. University of Pennsylvania
Systems Immunology and Microbiome Medicine lab
#Academia #Immunology #Microbiome #SystemsBiology
Mentorship | Science communication | Research culture

Lab website: Babdorlab.com
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joelbabdor.bsky.social
Joel Babdor @joelbabdor.bsky.social · Nov 23
Wow, there's a lot of us here now. Reintroducing myself:
I am Joel 👋🏿.
My lab studies how the microbiome shapes the immune system in health & disease, using a mix of bench and computational approaches.
I am also passionate about mentoring the next generation of scientists 🥼.
#immunology
#microbiome
Joel in his office, sitting at his desk.
Reposted by Joel Babdor
thomasp85.com
I am beyond excited to announce that ggplot2 4.0.0 has just landed on CRAN.

It's not every day we have a new major #ggplot2 release but it is a fitting 18 year birthday present for the package.

Get an overview of the release in this blog post and be on the lookout for more in-depth posts #rstats
ggplot2 4.0.0
A new major version of ggplot2 has been released on CRAN. Find out what is new here.
www.tidyverse.org
September 11, 2025 at 11:20 AM
joelbabdor.bsky.social
Excited to receive the Lupus Research Alliance Career Development Award. This award will support my lab at Penn studying how the microbiome shapes immune states in lupus. Honored to join amazing colleagues in pushing lupus research forward. #LupusResearch #Microbiome #Immunology

bit.ly/LRA-ELR25
Lupus Research Alliance Announces 2025 Empowering Lupus Research Award Recipients to Support Breakthroughs
Today, the Lupus Research Alliance (LRA), the world’s largest private funder of lupus research, announced the recipients of the 2025 Empowering Lupus
bit.ly
August 6, 2025 at 2:27 PM
Reposted by Joel Babdor
sinzandrea.bsky.social
‼️ Job alert 🚨: I have an open 3-year postdoc position in my lab to develop novel crosslinking mass spectrometry workflows. 🧪🧪 So if you want to do cool stuff in protein MS, please apply ! ⬇️ Please RT
www.verwaltung.uni-halle.de/dezern3/Auss...

#Academicsky
#Chemsky
#teammassspec
www.verwaltung.uni-halle.de
June 25, 2025 at 12:44 PM
Reposted by Joel Babdor
johannajoyce.bsky.social
Are you looking to start your #lab in a fantastic scientific 🧪environment, with great colleagues, and in a spectacular place to live?

Then check out our open #junior #faculty position at the Department of Oncology, University of Lausanne, Switzerland:
www.unil.ch/dof/en/home/...

⏰ Deadline 27 June
June 23, 2025 at 5:14 PM
Reposted by Joel Babdor
cibiocm.bsky.social
The new version of MetaPhlAn v4.2.2 released!

📌taxonomic profiling of long-read metagenomes for the first time
📌new version of the MetaPhlAn db (vJan25_202503) containing >21k new SGBs

Try it out & @hutlab.bsky.social and we are looking forward to your feedback!
forum.biobakery.org/t/metaphlan-...
MetaPhlAn 4.2.2 release (initial long-read sequencing support and database update)
Announcement We are pleased to share that MetaPhlAn 4.2.2 is now available, which incorporates taxonomic profiling of long-read metagenomes for the first time and includes a new version of the MetaPhl...
forum.biobakery.org
June 11, 2025 at 6:15 AM
Reposted by Joel Babdor
katherine-maki1.bsky.social
👀👀 Looking for recs 👀👀

Are there any summer/fall workshops on multi-omic, pathway or microbiome analyses where the application period has not already passed? Looking for some good options for my trainees! Appreciate any leads in advance #AcademicSky #Bioinformatics
May 14, 2025 at 5:34 PM
Reposted by Joel Babdor
giampazolias.bsky.social
💥Exciting new #postdoc opportunities in my lab at @cruk-mi.bsky.social i.bsky.social to study #NutrientHostMicrobiome interactions in #CancerImmunity in mice and humans. #CancerImmunology#MucosalImmunology#Microbiome

⏰Deadline: 4 April 2025
Apply👇
www.cruk.manchester.ac.uk/career/mi-24...

⏩RT
March 26, 2025 at 2:04 PM
Reposted by Joel Babdor
richardsever.bsky.social
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers] openrxiv.org 1/n
Homepage - openRxiv
openRxiv is an independent non-profit, the new organizational home for bioRxiv and medRxiv, enabling researchers to instantly share groundbreaking findings with the global scientific community.
openrxiv.org
March 11, 2025 at 1:20 PM
Reposted by Joel Babdor
kashifshaikh.bsky.social
I am excited to share that I am starting as a postdoctoral researcher in the labs of
@hajera-amatullah.bsky.social and @joelbabdor.bsky.social at University of Pennsylvania
March 4, 2025 at 1:03 AM
Reposted by Joel Babdor
richardsever.bsky.social
Calling all bioRxiv affiliates - bat signal is up as we have a big backlog. If you have time to screen some papers, we'd be eternally grateful! 🙏
February 27, 2025 at 8:17 PM
Reposted by Joel Babdor
jamieheather.bsky.social
Dear TCR researchers of #immunosky, you may be interested to know that our tool Stitchr - for the automated production of full-length T cell receptor sequences - has just had a nice little update:

jamieheather.github.io/stitchr/
stitchr — stitchr documentation
jamieheather.github.io
February 25, 2025 at 4:24 AM
Reposted by Joel Babdor
blekhman.bsky.social
These are challenging times for science, but I'm happy to share a bright moment: our work is on the cover of Cell today.

We built a compendium of human gut microbiomes integrating 168K worldwide samples, revealing patterns of microbiome variation across the globe

www.cell.com/cell/current...
February 20, 2025 at 4:06 PM
Reposted by Joel Babdor
natmicrobiol.nature.com
OUT NOW: ILC3s regulate the gut microbiota via host intestinal galactosylation to limit pathogen infection in mice

#microsky #immunosky

www.nature.com/articles/s41...
ILC3s regulate the gut microbiota via host intestinal galactosylation to limit pathogen infection in mice - Nature Microbiology
Akkermansia muciniphila can promote intestinal pathogen infection in mice via microbial metabolite succinate production, but the expansion of A. muciniphila is strictly controlled by ILC3s through the...
www.nature.com
February 18, 2025 at 10:10 AM
Reposted by Joel Babdor
cdiener.com
Happy to announce that MEDI, our method to quantify dietary intake through metagenomics is out now. 🧬 🧪🧫🦠 www.nature.com/articles/s42...

#metagenomics #microbiome #microbiomesky

So what is MEDI? A combination of two things:
Metagenomic estimation of dietary intake from human stool - Nature Metabolism
Diener et al. present a method that allows the estimation of dietary intake from human stool by detecting food-derived DNA in faecal metagenomes.
www.nature.com
February 18, 2025 at 11:02 AM
Reposted by Joel Babdor
jcsalterego.bsky.social
at least it's friday
February 4, 2025 at 12:22 PM
joelbabdor.bsky.social
It’s #WorldCancerDay 🎗🌍

I’m thinking of my family members who survived cancer thanks to the work of doctors & scientists.
Fighting cancer is 1 of the reasons I became a researcher

Today I’m proud to join our Cancer Center as an official member @pennmedicine.bsky.social, committed to fight & win!
February 4, 2025 at 3:23 PM
joelbabdor.bsky.social
This looks like a fantastic event! What a lineup! And why do I want to frame the poster so much!?
virusesimmunity.bsky.social Prof. Akiko Iwasaki @virusesimmunity.bsky.social · Feb 2
Looking forward to attending the 22nd Takeda Science Foundation Symposium on Bioscience in Osaka next week and catching up with immunology colleagues.
第22回武田科学振興財団生命科学シンポジウム-ヒト免疫系を解き明かす
February 2, 2025 at 12:06 PM
Reposted by Joel Babdor
karenyperalta.bsky.social
So excited this work is out! 🦠🧫🐾🥼🧪

If you want to cultivate and isolate bacteria from sensible microbial samples collected in the field and needed to be transporters to the lab, take a look at the study we conducted using multiple preservation solutions with or without cryoprotectants.
January 29, 2025 at 12:31 AM
Reposted by Joel Babdor
cp-immunity.bsky.social
Share your #cancer #immunology research w/ #CSCancerImmunity2025 organizers Ignacio Melero, Ira Mellman, Fabiola Rivas @cp-immunity.bsky.social
& Montse Rojo de la Vega @cp-cancercell.bsky.social . hubs.li/Q033hK4y0
January 21, 2025 at 5:44 PM
Reposted by Joel Babdor
davidusharauli.bsky.social
This epic study, which took more than three years to get published, deserves special consideration.

#immunology
#microbiome
#allergy

RELMβ sets the threshold for microbiome-dependent oral tolerance - Nature
RELMβ mediates a gut immune–epithelial circuit regulating tolerance to food antigens, offering targetable candidates for the prevention and treatment of food allergies.
www.nature.com
January 23, 2025 at 2:48 AM
Reposted by Joel Babdor
dunnschool.bsky.social
ICYMI

We are recruiting a new Associate Professor in cell and molecular biology, with a preference for immunology, inflammation and/or infection - all defined broadly

Come and be our colleague!

Deadline 28 Feb, please spread the word!

www.path.ox.ac.uk/vacancy/asso...
January 22, 2025 at 3:09 PM
Reposted by Joel Babdor
ejvillablanca.bsky.social
Dear mucosal immunologists!

Registration for the European Mucosal Immunology Group (EMIG) meeting in Aachen, Germany is now open.

Register and see you this July in Aachen! 👇🏼

emig2025.de

@petterbrodin.bsky.social @wiag.bsky.social @mucosalimmunol.bsky.social @societymucosalimm.bsky.social
January 25, 2025 at 2:25 PM
Reposted by Joel Babdor
altmetric.com
We strongly suggest that academic publishers and other platforms that host research rapidly implement a Share to Bluesky button for their articles. Here's how:

docs.bsky.app/docs/advance...

#AcademicSky #HigherEd #Altmetrics
Action Intent Links | Bluesky
Authors, websites, and apps can use action intent links to implement "Share on Bluesky" buttons, or similar in-app actions. Logged-in users will be directed to the corresponding action view in the Blu...
docs.bsky.app
November 18, 2024 at 2:48 PM
joelbabdor.bsky.social
I love this positive story of scientists who find ways to collaborate instead of competing.

It takes some work, open communication and keen awareness of everyone's interest but the positive outcome makes it worth the effort!

A good read in these trying times.
anshulkundaje.bsky.social Anshul Kundaje @anshulkundaje.bsky.social · Jan 24
I wanted to write briefly about a very pleasant experience we recently had coordinating and collaborating closely on competing publications with 2 other teams. 1/
January 25, 2025 at 1:41 PM