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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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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.

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Thomas Lin Pedersen @thomasp85.com · Sep 11

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

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Joel Babdor @joelbabdor.bsky.social · Aug 6

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

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Andrea Sinz 🧪 @sinzandrea.bsky.social · Jun 25

‼️ 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

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Johanna Joyce @johannajoyce.bsky.social · Jun 23

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

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Segata Lab @cibiocm.bsky.social · Jun 11

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

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Katherine Maki, PhD, NP-BC @katherine-maki1.bsky.social · May 14

👀👀 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

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Evangelos Giampazolias @giampazolias.bsky.social · Mar 26

💥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

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Reposted by Joel Babdor

Richard Sever @richardsever.bsky.social · Mar 11

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

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Kashif Shaikh @kashifshaikh.bsky.social · Mar 4

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

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Richard Sever @richardsever.bsky.social · Feb 27

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! 🙏

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Jamie Heather @jamieheather.bsky.social · Feb 25

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

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Ran Blekhman @blekhman.bsky.social · Feb 20

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...

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Nature Microbiology @natmicrobiol.nature.com · Feb 18

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

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Christian Diener @cdiener.com · Feb 18

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

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Jerry Chen @jcsalterego.bsky.social · Feb 4

at least it's friday

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Joel Babdor @joelbabdor.bsky.social · Feb 4

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!

Joel Babdor @joelbabdor.bsky.social · Feb 2

This looks like a fantastic event! What a lineup! And why do I want to frame the poster so much!?

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

Joel Babdor @joelbabdor.bsky.social · Feb 2

📌

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Karen Peralta Martínez @karenyperalta.bsky.social · Jan 29

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.

KevinDKohl @kevindkohl.bsky.social · Jan 23

Excited to share this newly published work by graduate student @karenyperalta.bsky.social !
🐿️💩🧫🦠🧬

Reviving diversity: cryoprotectants and culturing methods enhance recovery of mammalian gut microbes from field samples

academic.oup.com/jmammal/adva...

Reviving diversity: cryoprotectants and culturing methods enhance recovery of mammalian gut microbes from field samples

From the field to the lab: comparing several storage and growth conditions shows promise for laboratory isolation of gut microbes from microbiome samples o

academic.oup.com

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Immunity @cp-immunity.bsky.social · Jan 21

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

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David Usharauli @davidusharauli.bsky.social · Jan 23

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

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The Dunn School, Oxford @dunnschool.bsky.social · Jan 22

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...

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Eduardo Villablanca @ejvillablanca.bsky.social · Jan 25

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

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Altmetric @altmetric.com · Nov 18

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

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