Join @pennepigenetics.bsky.social on 2/23 for their 2026 symposium ft'ing Scott Armstrong, Ali Shilatifard, Ting Wang, @weissmanlab.bsky.social, Huda Zoghbi, @gburslem.bsky.social, Erica Korb, Mitchell Lazar, @vahedilab.bsky.social & Zhoalan Zhou. Learn more & register➡️ tinyurl.com/3zdms2yx

Didn’t get the grad school interview you wanted yet? Turn this year into a launchpad. The Vahedi Lab @Penn is hiring a Research Specialist A/B — an ideal role for undergrads & recent grads aiming for PhD/MD-PhD programs. 🧬 Immunology + genomics. Apply here: lnkd.in/e8uT_hif

I3H Deputy Director, Dr. Vahedi (@vahedilab.bsky.social) will be discussing "Multiome Profiling in Human Type 1 Diabetes" at this month's session of the Colton Consortium Virtual Speaker Series (Jan. 20, 11:00am ET). Register to secure your spot: bit.ly/VahediJan20

The Colton Consortium for Autoimmunity@coltonconsortium.bsky.social · 7mo ago

Join the Colton Consortium Virtual Speaker Series on Jan. 20 (11am ET) ft. Golnaz Vahedi, PhD (@upenn.edu). Her recent work identifies a hidden subset of immune “attack” cells that emerge early in Type 1 diabetes—offering clues for blood-based detection and earlier intervention. bit.ly/VahediJan20

ft. @yeqiaoz.bsky.social, N. Burget, Tobias Friedrich, @faryabi.bsky.social (@pennpathlabmed.bsky.social), @atishayjay.bsky.social (Bioeng), S. Yoon & @vahedilab.bsky.social (@penngenetics.bsky.social) @pennepigenetics.bsky.social @i3h-upenn.bsky.social www.nature.com/articles/s41...

ft. M. Abedi, P. Rai, Y. Zhou, C. Liu, I. Johnson, A. Chandra, M. Fasolino, S. Rostami, W. Wang, Z. Min, Y. Li, M. Yu, @atishayjay.bsky.social, V. Lian, M. Silverman, @kkaestner.bsky.social, A. Naji, B. Faryabi & @vahedilab.bsky.social @penngenetics.bsky.social www.science.org/doi/10.1126/...

Three new manuscripts from Faryabi and Vahedi labs on chromatin folding, ORCA, oncogene regulation and T1D immunology. Individually great, collectively unstoppable. @faryabi.bsky.social @vahedilab.bsky.social @atishayjay.bsky.social tinyurl.com/4nwfbeu2 tinyurl.com/4zaw5cn7 tinyurl.com/25snbf4j

OLIVE provides rapid visualization and analysis of chromatin tracing experiments

Zhou et al. develop the optical looping interactive viewing engine (OLIVE), a web-based application for browsing and exploring user-generated and publicly available chromatin tracing datasets.

cell.com

Kudos to Yeqiao Zhou, @atishayjay.bsky.social, and @vahedilab.bsky.social for our new @natcellbio.nature.com study www.nature.com/articles/s41...! By integrating chromatin tracing and polymer modeling, we revealed how lineage-determining TFs shape folding of B-cell lymphoma and T-ALL genomes.

Lineage-determining transcription factors constrain cohesin to drive multi-enhancer oncogene regulation - Nature Cell Biology

Zhou, Jay et al. report that in mantle cell lymphoma and T cell leukaemia, lineage-determining transcription factors share a mechanism to regulate how multiple enhancers control oncogene expression th...

nature.com

Beyond excited to share the collaborative work with @faryabi.bsky.social led by stars Yeqiao Zhou and @atishayjay.bsky.social; Walking along thousands of chromosomes has shown us just how essential it is to measure chromatin fiber geometry to truly understand enhancer biology. tinyurl.com/2st3afwf

Lineage-determining transcription factors constrain cohesin to drive multi-enhancer oncogene regulation - Nature Cell Biology

Zhou, Jay et al. report that in mantle cell lymphoma and T cell leukaemia, lineage-determining transcription factors share a mechanism to regulate how multiple enhancers control oncogene expression th...

nature.com

With co-first author, CAMB Alum, Yeqiao Zhou from her time in the Faryabi Lab (@faryabi.bsky.social)

Golnaz Vahedi @vahedilab.bsky.social · 8mo ago

I am very excited to share our collaborative work on multiome profiling of gene expression and chromatin accessibility of more than 1 million immune cells in pancreatic lymph nodes and spleens in human type 1 diabetes in @sciimmunology.bsky.social scim.ag/4o12TOZ

How to keep in step when your (protein) partner speeds up… Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection. Congrats to whole team! www.science.org/doi/10.1126/...

Rapid compensatory evolution within a multiprotein complex preserves telomere integrity

Intragenomic conflict with selfish genetic elements spurs adaptive changes in subunits of essential multiprotein complexes. Whether and how these adaptive changes disrupt interactions within such comp...

science.org

I am very excited to share our collaborative work on multiome profiling of gene expression and chromatin accessibility of more than 1 million immune cells in pancreatic lymph nodes and spleens in human type 1 diabetes in @sciimmunology.bsky.social scim.ag/4o12TOZ

Joint profiling of gene expression and chromatin accessibility in pancreatic lymph nodes and spleens in human type 1 diabetes

Joint chromatin accessibility and transcriptomic profiling of human and mouse pancreatic lymph nodes uncovers distinct features of CD4 T cells in T1D.

scim.ag

Congratulations to @ksusztak.bsky.social (@pennmedicine.bsky.social/ @penngenetics.bsky.social/ @chopresearch.bsky.social) on her election to the National Academy of Medicine! Learn more about Dr. Susztak & her research here➡️ www.med.upenn.edu/susztaklab/ #PSOMatNAM @nam.edu

Congratulations to Gerd Blobel (@chopresearch.bsky.social/ @pennmedicine.bsky.social/ @pennepigenetics.bsky.social) on his election to the National Academy of Medicine! Learn more about Dr. Blobel & his research here➡️ blobellab.squarespace.com #PSOMatNAM @nam.edu

In this article, I share my perspective on leveraging AI and single-cell profiling to predict type 1 diabetes. It’s great to see the diverse insights contributed by other experts in the field: www.nature.com/articles/s42...

Artificial intelligence in metabolic research - Nature Metabolism

The recent developments in artificial intelligence (AI) have created both intrigue and apprehension in the world of research. In this Viewpoint, we asked 12 experts in the field of metabolism to share their — differing — opinions on the use of AI in pre-clinical and clinical metabolic research.

nature.com

Thrilled to share my promotion to Associate Professor with tenure at @pitt-immunology.bsky.social! Huge thanks to my incredible lab, collaborators, department, colleagues, family & friends. Science is a team effort, and I'm so proud of our work & excited for what's next! Stay tuned!

Pitt Department of Immunology@pitt-immunology.bsky.social · 10mo ago

Congratulations to Dr. Amanda Poholek @poholeklab.bsky.social for her promotion to Associate Professor with tenure! Learn more about Dr. Poholek and her research: buff.ly/q14wey8

The Vahedi Lab is seeking a highly motivated Research Specialist A/B to join our dynamic research group studying the mechanisms of immune regulation. Apply here: wd1.myworkdaysite.com/recruiting/u...

Research Specialist A/B

University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school co...

wd1.myworkdaysite.com

Excited to finally present the lab's latest work in defining candidate causal genetic variants that drive autoimmune diseases and their effects on primary human T cell expression and function! www.nature.com/articles/s41...

Genetic and epigenetic screens in primary human T cells link candidate causal autoimmune variants to T cell networks - Nature Genetics

Massively parallel reporter assay in primary human CD4+ T cells and bulk and single-cell CRISPR-interference screens identify candidate causal variants linked to autoimmune disease risk that modulate ...

nature.com

New preprint in collaboration with the Faryabi lab: Optical Looping Interactive Viewing Engine (OLIVE), a web-based tool designed for high-throughput chromatin tracing data that functions similarly to genome browsers. If you work with these data, give a try: www.biorxiv.org/content/10.1...

🚨 New #preprint alert! We're excited to share the latest work from the brilliant Sora Yoon: "Inference of multi-enhancer interactions in T lymphocytes using Hi-Cociety"🔗 www.biorxiv.org/content/10.1...

🚨 New #preprint alert! We're excited to share our latest work: "Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd

🚨 New #preprint alert! We're excited to share our latest work: "Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd

Sometimes you only need to focus on good news: www.nytimes.com/2025/05/15/h...

Baby Is Healed With World’s First Personalized Gene-Editing Treatment

nytimes.com

The recorded video of Dr. Golnaz Vahedi seminar entitled Chromatin topology at paralogous transcription factors is now available at “Global Immunotalks” YouTube Channel youtube.com/live/7aw_Qx5... Please ask questions in the Youtube comment section for Golnaz. Hope you enjoy it!

GLOBAL IMMUNOTALKS: Virtual immunology seminar series

YouTube video by GLOBAL IMMUNOTALKS

youtube.com

Looking forward to our next #globalimmuno talk this Wednesday, May 7th, at 9am PST, noon EST, 4pm GMT by Dr. Golnaz Vahedi. Title: “Chromatin topology at paralogous transcription factors” ZOOM LINK: ucsd.zoom.us/j/91053505061 LIVE ON YOUTUBE: www.youtube.com/@GLOBALIMMUNOTALKS

It takes a special talent to observe the phenotype of an ETS1 super-enhancer deletion and see into the evolution of paralogous transcription factors. Holy 🤯, @vahedilab.bsky.social!

Congratulations to Katalin Karikó (@PennNSG), Virginia Lee (@pennpathlabmed.bsky.social), @ejohnwherry.bsky.social (@PennSysPharmATT) & Mark Devlin (@physatpenn) on their election to @nasonline.org! tinyurl.com/5eehdtms

Super excited to be launching NimbusImage.com! Cloud-based image analysis to democratize machine learning! Documentation here! docs.nimbusimage.com

NimbusImage

nimbusimage.com

Congrats to Atishay and Carlos for their review article on the epigenetics regulation of T cells: www.nature.com/articles/s41...

The epigenetic landscape of fate decisions in T cells - Nature Immunology

Vahedi and colleagues review the mechanisms shaping the epigenetic landscape of CD4+ and CD8+ T cells during development and differentiation.

nature.com

Accuracy of gene regulatory network inference is increased by combining multiome single-cell and atlas-scale bulk data go.nature.com/43YySqO rdcu.be/ebBio

Inferring gene regulatory networks from single-cell multiome data using atlas-scale external data - Nature Biotechnology

Accuracy of gene regulatory network inference is increased by combining multiome single-cell and atlas-scale bulk data.

go.nature.com

Emily Whitehead and her father on CNN with Jake Tapper speaking to the value of science. She is alive thanks to CAR T therapy developed at Penn and CHOP.