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Shira Weingarten-Gabbay

@shiraweingarten.bsky.social
561 followers 242 following 62 posts

Assistant Professor of Microbiology at Harvard Medical School Viruses | Immunology | Ribosomes | Systems Biology #LoveVirology www.shiraweingartengabbay.com

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Reposted by Shira Weingarten-Gabbay
Philippe Batut @philippebatut.bsky.social · 10/09/2026
🧬🔬 Why are enhancers transcribed and how does that impact gene regulation? I’m really excited to share our new paper in @science.org showing that noncoding RNAs control the timing of gene activation in embryos. With Mike Levine #ScienceResearch @columbiamed.bsky.social A few highlights below... 🧵👇
science.org
Noncoding transcription controls the developmental dynamics of long-range gene regulation
The genomic regions regulating gene expression are often themselves transcribed into a variety of noncoding RNAs (ncRNAs). However, the regulatory roles of this noncoding transcription remain largely ...
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 10/06/2026
Immensely grateful to the @beckman-foundation.bsky.social for supporting our lab’s work on viral immune evasion, and honored to join the Beckman Young Investigator Program!! I look forward to being part of this incredible community 🤩
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 10/06/2026
Tomorrow at the #SystemsVirologyJournalClub, William Bakhache (@williambakhache.bsky.social) will present his work with Patrick Dolan (@ptdolan.bsky.social) on the constraints that shape Enterovirus A71 evolution using deep mutational scanning. pubmed.ncbi.nlm.nih.gov/39609576/
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Reposted by Shira Weingarten-Gabbay
Leading Edge Fellows Program @leadingedgeprogram.bsky.social · 09/06/2026
We are thrilled to announce the 2026 Zara Weinberg Leading Edge Fellows! 40 remarkable postdocs pursuing transformative research in biological/biomedical sciences. This is the 7th Leading Edge cohort and we are so excited to welcome them! www.leadingedgesymposium.org/fellows/
Congratulations to the 2026 Zara Weinberg Leading Edge Fellows! 
Airi Yoshimoto, Yijun Yang, Alexandra Wells, Simran Virdi, Archana Venkataraman, Emery Usher, Marianna Tannus Ruckert, Wenzhi Song, Kathryn Shelley, Selin Schamiloglu, Julia Peloggia de Castro, Ines Patop, Ruhi Patel, Suranjana Pal, Bernie Simone Owusu Yaw, LaShae Nicholson, Sivapratha Nagappan Chettiar, Dallas Mould, Jessica Moore, Deka Mohamed, Sierra Marable, Annie Ly, Xi (Lucy) Lu, Deirdre Logsdon, Anna Lipkin, Ellen Lesser, Mia Konjikusic, Veronika Kondev, Cayla Jewett, Lucia Ichino, Erin Huiting, Maggie Horst, Isabella Gaeta, Martha Echevarria-Andino, Natasha Claxton, Sarah Cherkaoui, Nikita Bhalerao, Merci Best, Meenakshi Asokan, Alicer Andrew
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 13/05/2026
Tomorrow at the #SystemsVirologyJournalClub @mayavoichek.bsky.social will present her work with @juliusbrennecke.bsky.social on the discovery of direct cell-to-cell transmission of retrotransposons. Paper: biorxiv.org/content/10.1...
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 15/04/2026
Tomorrow at the #SystemsVirologyJournalClub, Ivan Zheludev will present his work with Andrew Fire on the discovery of viroid-like RNAs that are associated with the human microbiome. Join us! Paper: pubmed.ncbi.nlm.nih.gov/39481381/
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 25/03/2026
Tomorrow at the #SystemsVirologyJournalClub, @finkelyaara.bsky.social will present her work with @sginossarlab.bsky.social on engineering HCMV to express sgRNA libraries directly from the viral genome to profile virus-host interactions across the infection cycle. Join us!
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 10/03/2026
Beautiful work from the Nemudryi lab discovering tRNA-targeting antiviral immunity in bacteria.
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Reposted by Shira Weingarten-Gabbay
Naama Aviram @naamaaviram.bsky.social · 11/02/2026
Abstract submission is now OPEN for the 2026 Symposium on the Immune System of Bacteria! sisb2026.rockefeller.edu 🗓 May 5–7, 2026 📍 Rockefeller University, New York City ⏰ Abstract deadline: March 16, 2026 Attendance will be capped, be sure to register early and secure your spot. See you in NYC!
sisb2026.rockefeller.edu
SISB2026
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Reposted by Shira Weingarten-Gabbay
Ophir Shalem @ophirshalem.bsky.social · 02/03/2026
As we are sending back the revised version of our pooled prime editing gene tagging paper, I am happy to share a website for design of prime tagging libraries, including some images, all generated from a single pooled transduction and in situ sequencing. primetagging.org
primetagging.org
Prime Tagging
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 25/02/2026
Tomorrow at the #SystemsVirologyJournalClub, Joel Tan (@joelmjtan.bsky.social) will present his work with Philip Kranzusch (@kranzuschlab.bsky.social) on a DNA-gated molecular guard that control bacterial anti-phage defence. Paper: pubmed.ncbi.nlm.nih.gov/40306316/
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Reposted by Shira Weingarten-Gabbay
Marvin Tanenbaum @marvintanenbaum.bsky.social · 28/01/2026
Now out in Nature! We visualize infection of the RNA virus RSV in real-time with single-vRNP resolution to understand how RSV establishes viral factories, biomolecular condensates that act as sites of viral replication. A huge collaborative effort led by Dhanushika Ratnayake! rdcu.be/e1bBW
rdcu.be
Pre-assembly of biomolecular condensate seeds drives RSV replication
Nature - Viral ribonucleoprotein–viral protein networks form pre-replication centres that nucleate viral factories and drive respiratory syncytial virus replication.
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 28/01/2026
Join us tomorrow at the #SystemsVirologyJournalClub. @lauraluebbert.com will present her work with @lpachter.bsky.social on detecting viruses at single-cell resolution and uncovering associated changes in host gene expression. Paper: pubmed.ncbi.nlm.nih.gov/40263451/
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 07/01/2026
Tomorrow, at the #SystemsVirologyJournalClub, @samuelhking.bsky.social will present his work with @brianhie.bsky.social using AI genome language models to generate novel, high-fitness bacteriophages.
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Reposted by Shira Weingarten-Gabbay
Science in Boston @scienceinboston.com · 28/12/2025
Coming in at #4 in our Top 5 Countdown: virus hunters assemble! Dr. @shiraweingarten.bsky.social at @harvardmed.bsky.social launched the Laboratory of Systems Virology. We cannot wait to see what the lab accomplishes in 2026! bsky.app/profile/scienceinboston.co…
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 11/12/2025
A remarkable recognition in Nature’s 10 for @merbllab.bsky.social and her team at #WeizmannInstitute the mindblowing discovery of a defense mechanism in human cells mediated by proteasome-derived antimicrobial peptides 🤩 www.nature.com/articles/d41...
nature.com
This scientist found a new trick of the immune system by digging through cellular rubbish
Yifat Merbl is part of Nature’s 10, a list of people who shaped science in 2025.
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Reposted by Shira Weingarten-Gabbay
American Society for Virology @amersocvirology.bsky.social · 04/12/2025
🚨ATTENTION EARLY CAREER VIROLOGISTS🚨 We have a webinar on how to get a faculty position! Hear from Jean Lim, @drsprggs.bsky.social and @tylernstarr.bsky.social. Check your email for registration link and form to submit questions in advance.
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 04/12/2025
Tomorrow (Thursday) at the Systems Virology Journal Club, Noor Youssef will present her work with Debbie Marks on developing an AI model that predicts how viruses evolve to evade the immune response. Paper: pubmed.ncbi.nlm.nih.gov/40345199/
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 29/10/2025
Tomorrow at the #SystemsVirologyJournalClub Yingpu Yu will present his work with Charles Rice on the cis preference of HBV polymerase to its transcript. Spoiler alert: it involves #ribosome stalling! 😍 Paper: pubmed.ncbi.nlm.nih.gov/38723628/
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 20/10/2025
🚨 Systems Virology Journal Club – 8th Series! 🚨 #BillSchneider and I are delighted to announce another round of cutting-edge talks in #SystemsVirology! 🦠💡 Join us and an outstanding lineup of speakers, starting Oct 30. Free registration: shiraweingartengabbay.com/systems-viro... 🔬✨
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 17/09/2025
Congratulation to all the laureate and finalists and to the brilliant Maria Cecilia Canesso 🤩
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 13/09/2025
Looking forward to a terrific symposium on Synthetic Biology and it's implication in therapeutic development ✨
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Sorek Lab @soreklab.bsky.social · 02/09/2025
Preprint: De-novo design of proteins that inhibit bacterial defenses Our approach allows silencing defense systems of choice. We show how this approach enables programming of “untransformable” bacteria, and how it can enhance phage therapy applications Congrats Jeremy Garb! tinyurl.com/Syttt 🧵
biorxiv.org
Synthetically designed anti-defense proteins overcome barriers to bacterial transformation and phage infection
Bacterial defense systems present considerable barriers to both phage infection and plasmid transformation. These systems target mobile genetic elements, limiting the efficacy of bacteriophage-based t...
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Reposted by Shira Weingarten-Gabbay
Waggoner Lab @labwaggoner.bsky.social · 12/08/2025
SPEAR (bacterial nanosynringe) enables loading of different types of cargo (including folded ribonucleoproteins and single-stranded DNA) and targeting of defined cell types both in vitro and in vivo www.nature.com/articles/s41... @natbiotech.nature.com @zhangf.bsky.social
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Abraham lab at Harvard Medical School @abrahamlabhms.bsky.social · 09/08/2025
Excited to share our new @natmicrobiol.nature.com paper revealing the most complete arenavirus glycoprotein complex (GPC) structures to date 🤩 www.nature.com/articles/s41...
nature.com
Molecular organization of the New World arenavirus spike glycoprotein complex - Nature Microbiology
Cryo-EM structures of the full-length Junin virus and Machupo virus spike glycoprotein complexes stabilized in the prefusion conformation. Analyses reveal features that regulate glycoprotein pH-depend...
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 09/08/2025
Super interesting insights on the evolutionary constrains on synonymous codons 🤩 "Our results suggest that cotranslational localization and translational accuracy, more than cotranslational protein folding, are major drivers of selective pressure on codon choice in eukaryotes."
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 15/07/2025
The most humble scientist I know and a true legend
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 13/07/2025
On my way to #ASV2025. Two flights canceled due to weather ⛈️ but should make it on time! Join us for a terrific symposium tomorrow morning on #NextGenerationVirology with #BenhurLee #JesseBloom #LisaWagner @wchnicholas.bsky.social and #IleanaCristea. Safe travel everyone! #LoveVirology
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American Society for Virology @amersocvirology.bsky.social · 04/12/2024
Get ready for ASV 2025! The 2025 American Society for Virology meeting will be hosted by McGill University and held at the Palais des Congrès de Montréal, Montréal, Québec, Canada from July 14 - 17, 2025. Abstract submission, travel award apps, and registration are now open! asv.org/asv2025/regi...
asv.org
Register 2025 | American Society for Virology
The 44th Annual Meeting of the American Society for Virology! Dates: July 14 – 17, 2025 (Monday – Thursday) Palais des congrès de Montréal Host: McGill University *TEACHER TRAVEL GRANTS: Applications…
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Reposted by Shira Weingarten-Gabbay
Science in Boston @scienceinboston.com · 01/07/2025
Dr. Shira Weingarten-Gabbay (@shiraweingarten.bsky.social) from @harvardmed.bsky.social is leading the new Laboratory of Systems #Virology. Her lab uncovers the inner workings of viruses and their interaction with the immune system to prevent current and future viral diseases: bit.ly/44peaBa
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The Rockefeller University @rockefeller.edu · 30/06/2025
"This work by Shira highlights new dark matter in viral genomes that can influence disease and how we design vaccines," says Charles Rice. "It’s yet another layer of biology that was not appreciated but opens up exciting new opportunities for exploration."
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The Rockefeller University @rockefeller.edu · 30/06/2025
A recent study from @shiraweingarten.bsky.social, a former postdoc in the Rice laboratory, revealed 4,208 previously unknown proteins that are made by viruses such as influenza and H.I.V. using a new technique called massively parallel ribosome profiling.
nytimes.com
Shining a Light on the World of Tiny Proteins
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Thelonevirologist @thelonevirologist.bsky.social · 13/06/2025
Pan-viral ORFs discovery using massively parallel ribosome profiling www.science.org/doi/10.1126/...
science.org
Pan-viral ORFs discovery using massively parallel ribosome profiling
Defining viral proteomes is crucial to understanding viral life cycles and immune recognition but the landscape of translated regions remains unknown for most viruses. We have developed massively para...
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Ophir Shalem @ophirshalem.bsky.social · 17/06/2025
Congratulation @shiraweingarten.bsky.social! Beautiful work!
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Akos Nyerges @akosnyerges.bsky.social · 17/06/2025
Super exciting work! Congrats @shiraweingarten.bsky.social and everyone involved!
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Roland Pease @peaseroland.bsky.social · 12/06/2025
Also pleased to learn from @shiraweingarten.bsky.social about a new way of interrogating viral genomes to find, much faster than with conventional methods, what parts of the genetics are most important to the viral life cycle. Important for finding vaccines, antivirals etc. Using ribosomes.
Graphic showing how Massively Parallel Ribosome Profiling scans numerous viruses for translated regions of their genomes.
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Fede Fuchs W @fedefuchsw.bsky.social · 12/06/2025
Super super cool!
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Tamanash Bhattacharya @tamanash.bsky.social · 13/06/2025
Glad to see this out in its full glory. Congrats @shiraweingarten.bsky.social and team!
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Waggoner Lab @labwaggoner.bsky.social · 13/06/2025
Pan-viral ORFs discovery using massively parallel ribosome profiling @science.org @shiraweingarten.bsky.social @sabetilab.bsky.social @pardissabeti.bsky.social www.science.org/doi/10.1126/...
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Dr. Thomas Martínez @thomasmartinez.bsky.social · 12/06/2025
All that to say, I was glad to have the chance to talk about microproteins with @carlzimmer.com in this excellent NYT article, which wonderfully highlights the field and an innovative new method to study viral microproteins from Shira Weingarten-Gabbay and team at the Broad.
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Carl Zimmer @carlzimmer.com · 12/06/2025
How many proteins are in the human body? Excellent question! At least 20,000. But maybe 30,000? Maybe more? Here's my story about scientists exploring the hidden world of microproteins, and what it may mean for the future of medicine. nyti.ms/3HEPQTY 🧪
nyti.ms
Shining a Light on the World of Microproteins
From viruses to humans, life makes microproteins that have evaded discovery until now.
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 12/06/2025
Had a wonderful time chatting with @peaseroland.bsky.social about our study uncovering thousands viral proteins — thank you for the opportunity to share our work with the broader public! www.bbc.co.uk/sounds/play/... @pardissabeti.bsky.social @science.org @broadinstitute.org @harvardmed.bsky.social
bbc.co.uk
Science In Action - The First Solar Polar Pictures - BBC Sounds
ESA’s Solar Orbiter camera probe begins raising its orbit towards the sun’s poles.
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 12/06/2025
Thank you @carlzimmer.com @nytimes.com for covering our new study and the miraculous universe of microproteins! 💫 nytimes.com/2025/06/12/s... @pardissabeti.bsky.social @science.org @broadinstitute.org @harvardmed.bsky.social
nytimes.com
Shining a Light on the World of Tiny Proteins
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 12/06/2025
If you love #viruses, #ribosomes, and genomic #darkmatter, this thread is for you!! 💫 We're excited to share our new publication developing Massively Parallel Ribosome Profiling (MPRP), which uncovered ~4,000 hidden proteins in ~700 viral genomes. www.science.org/doi/10.1126/...
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 11/06/2025
Tomorrow at the Systems Virology Journal Club, #EthanVeit will present his work with #MattEvans on STAT2 resistance to flavivirus NS5 and the potential fitness costs. Join us! pubmed.ncbi.nlm.nih.gov/38926343/
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 21/05/2025
Tomorrow at the Systems Virology Journal Club, Min Jee Jang will present her work with Viviana Gradinaru on the development of spatial transcriptomics for profiling the tropism of viral vectors in tissues. pubmed.ncbi.nlm.nih.gov/36702899/
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Reposted by Shira Weingarten-Gabbay
Leeat Keren @leeat-keren.bsky.social · 15/05/2025
🚨Preprint Alert!🚨 Cell classification is one of the most difficult tasks in analyzing spatial data. We present CellTune - a powerful toolkit for accelerating biological discovery in spatial proteomics. 📄 www.biorxiv.org/content/10.1... 👇🧵1/7
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 15/05/2025
The Weingarten Lab is officially in business! 🎉 Huge thanks to the incredible @harvardmicro.bsky.social EHS team for their guidance and support as we got set up, and a special shoutout to Jessie, our amazing lab manager, for passing our first safety inspection with flying colors! 💥🧪
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Shira Weingarten-Gabbay @shiraweingarten.bsky.social · 30/04/2025
Tomorrow at the Systems Virology Journal Club, @tamanash.bsky.social will present his beautiful work with @harmitmalik.bsky.social on optimizing temperature-dependent trade-off between protein production and processing in alphaviruses through stop codon selectivity pubmed.ncbi.nlm.nih.gov/40249804/
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Ophir Shalem @ophirshalem.bsky.social · 23/04/2025
Check out our paper, now extensively revised and published in @cp-molcell.bsky.social! This has been a real tour de force led by Stephanie Sansbury and @ysereb.bsky.social and we are very excited about the findings and future potential of this approach www.cell.com/molecular-ce...
cell.com
Pooled tagging and hydrophobic targeting of endogenous proteins for unbiased mapping of unfolded protein responses
Sansbury and Serebrenik et al. use pooled gene tagging with in situ sequencing and high-throughput image analysis to generate a cell pool with endogenous HaloTag fusions. Hydrophobic targeting is then...
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