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Fritz Roth

@fritzroth.bsky.social
633 followers 349 following 51 posts

Opinions here are my own. Day job: Professor and Chair, Computational & Systems Biology, University of Pittsburgh School of Medicine rothlab.csb.pitt.edu Systematically testing impacts of genetic change & mapping protein interaction dynamics

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Reposted by Fritz Roth
Jeremy Berg @jeremymberg.bsky.social · 10/09/2026
Well, I just spent an hour updating my claims for the Anthropic data theft class action lawsuit 4 editions of my Biochem book, 4 editions of the Biochem Short Course, Principles of Bioinorganic Chem, and the quaint How the NIH Can Help Get You Funded A pain, but any funds recovered will be useful
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Molecular Biology and Evolution @molbioevol.bsky.social · 31/08/2026
Kim et al. introduce PRIME, a framework of codon-level maximum likelihood methods that explicitly model amino acid exchangeability as a function of physicochemical properties. 🔗 academic.oup.com/mbe/article/... #societyjournal #evobio #molbio
academic.oup.com
The physicochemical basis of protein evolution: property-informed evolutionary models (PRIME)
Abstract. Standard probabilistic models of coding sequence evolution effectively identify where and when selection acts but remain agnostic to the mechanis
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American Society of Human Genetics (ASHG) @geneticssociety.bsky.social · 20/08/2026
@fritzroth.bsky.social & co of @ajhgnews.bsky.social latest article measures the impact of amino acid changes in AIRE via a multiplexed reporter assay, providing a variant effect map & enabling more accurate pathogenicity classification of missense variants: bit.ly/3SdUBcU #ASHG
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Fritz Roth @fritzroth.bsky.social · 06/08/2026
🧪 One small step towards a complete atlas of human sequence variant effects, a giant leap for figuring out which variants in the Autoimmune Regulator (AIRE) protein are pathogenic, and some baby steps towards understanding the AIRE protein @varianteffect.bsky.social
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hellabores92.bsky.social @hellabores92.bsky.social · 06/07/2026
Excellent response from Dr. Bertagnolli to the article from Scott Atlas www.linkedin.com/pulse/dont-a...
linkedin.com
Don't abolish the NIH. Fix it.
Scott Atlas wants to abolish the National Institutes of Health and let markets take over ("NIH is a government weapon for political power. Abolish it," Washington Post, July 2).
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Ylva Ivarsson @ivarssonlab.bsky.social · 06/07/2026
Excited to share our preprint introducing ASHI: the Atlas of SLiM-mediated Human protein-protein Interactions. By screening 800+ domains against the human intrinsically disordered regions, we map 20,000 SLiM-mediated interactions. Many thanks to everyone involved! www.biorxiv.org/content/10.6...
biorxiv.org
An Atlas of Short Linear Motif-Mediated Human Protein-Protein Interactions
Short linear motifs (SLiMs) within intrinsically disordered protein regions mediate transient interactions crucial for cell physiology. However, the global interaction landscape of human SLiMs remains...
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Craig Kaplan @triggerloop.bsky.social · 07/05/2026
A giant in the early mechanisms and regulation of transcription
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drwendieberg.bsky.social @drwendieberg.bsky.social · 23/04/2026
Gratified and humbled to receive the Gold Medal, Society of Breast Imaging, for a life's work/career that is its own reward. Thank you to the many grant-funding agencies, co-investigators, and participants in research. We have more to do! @bcrfcure.bsky.social densebreast-info.org/remarks-from...
densebreast-info.org
Remarks from Dr. Wendie Berg, 2026 SBI Gold Medalist | DenseBreast-info, Inc.
We are so proud of our Chief Scientific Advisor, Dr. Wendie Berg, who was awarded the SBI Gold Medal at this year’s Society of Breast Imaging Annual Meeting — the organization’s highest honor. We are ...
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Pascal Falter-Braun @interactome.bsky.social · 20/04/2026
new publication in #Nature Commun evaluating PPI prediction by #AlphaFold & co for yeast and human compared to exp. screening. We show AF predictions at stringent cut-off are high quality. But true novelty is sparse and the experiment outperforms pred. nearly 40-fold. www.nature.com/articles/s41...
nature.com
Experimental assessment of AI-based interactome mapping - Nature Communications
AlphaFold’s success in protein structure predictions has led to similar attempts to predict interactomes. Here, the authors demonstrate that AI-based screens are very limited in discovering truly nove...
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Jim Woodgett @jwoodgett.bsky.social · 19/04/2026
This has to be the best advertising link ever.
Washington Post story on the devastating destruction of US science with particular focus on disenfranchising women and minorities and the use of multiple year funding (MYF) as a means to throttle numbers of grants. The advert above if for MYF language learning software.
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Chise @sailorrooscout.bsky.social · 14/04/2026
WELL NOW, would you look at that? A massive, 4-YEAR-LONG study of NEARLY 30 MILLION people in France found that individuals who received a COVID-19 mRNA vaccine had a 74% LOWER risk of death from severe COVID-19 compared to unvaccinated individuals and ZERO increased risk of all-cause mortality.
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Alex Steffen @alexsteffen.bsky.social · 06/04/2026
I hadn't seen this before. This is pretty remarkable. Earth and Moon in one NASA photo. ht @astrokatie.com
Earth and Moon from DSCOVR NASA's Earth Polychromatic Imaging Camera (EPIC) aboard the Deep Space Climate Observatory (DSCOVR) satellite captured this unique view of the Moon as it moved in front of the sunlit side of Earth last month. This view shows the fully illuminated “dark side” of the moon that is never visible from Earth. Ian Regan processed this version of the image to account for the Moon's motion. NASA / NOAA / Ian Regan
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Benedetta Bolognesi @bennibolo.bsky.social · 30/03/2026
Our latest paper is out! We built a large-scale mutational map of amylin to understand how sequence drives #amyloid formation, a process linked to type 2 #diabetes🩸📈📉. It’s a step towards connecting molecular mechanisms with human genetic variation in a systematic way.
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Eric Topol @erictopol.bsky.social · 29/03/2026
Validation of aggressive LDL lowering to reduce major adverse cardiovascular events, a randomized trial targeting LDL < 55 mg/dl. In participants with atherosclerotic cardiovascular disease (secondary prevention) [we didn't have the data from a randomized trial before] www.nejm.org/doi/full/10....
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Ian Kremer @wolverinebear.bsky.social · 28/03/2026
NIH restrictions on foreign research partnerships significantly impacted 1 in 4 U.S. scientists www.statnews.com/2026/03/27/n... via @statnews.com #HHS #NIH #science #publichealth
statnews.com
NIH restrictions on foreign research partnerships significantly impacted 1 in 4 U.S. scientists
In a survey of NIH-funded scientists, 25% said their research had been impacted a great deal or a fair amount by a move away from foreign subawards.
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Jeremy Berg @jeremymberg.bsky.social · 19/03/2026
OMB has posted the full-year apportionments for NIH. openomb.org/file/11511545 I believe this means that NIH now has the spending authority to fund grants! There may be nuances and I will be tracking these as best I can.
openomb.org
National Library of Medicine and 24 other accounts | 11511545
Apportionment file 11511545 (National Library of Medicine and 24 other accounts) retrieved from OMB public records
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Jeremy Berg @jeremymberg.bsky.social · 17/03/2026
Action Item...Action Item...Action Item Time to comment on the Framework for the NIH-Wide Strategic Plan grants.nih.gov/grants/guide... Comments due by May 16, 2026
grants.nih.gov
NOT-OD-26-047: Request for Information (RFI): Inviting Comments and Suggestions on a Framework for the NIH-Wide Strategic Plan for Fiscal Years 2027-2031
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Request for Information (RFI): Inviting Comments and Suggestions on a Framework for the NIH-Wide Strategic Plan for Fis...
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Stephen Turner @stephenturner.us · 16/03/2026
"I Wrote Research Funding Announcements for NIH for 22 Years. This Year They’ve Published 14. How NIH went from 756 funding announcements to 14 in two years — and what it means for every disease that depends on federal research" elizabethginexi.substack.com/p/i-wrote-re...
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Computational & Systems Biology Dept. at Pitt @csbpitt.bsky.social · 12/03/2026
The Gur lab has published a new article in JACS Au, a journal of the American Chemical Society, that sheds light on how a promising class of cancer-fighting molecules works at the atomic level. Read more about the research on protein phosphate 2A, an "off-switch" for cancer: tinyurl.com/JACSPP2A
protein phosphate 2A
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Jeremy Berg @jeremymberg.bsky.social · 05/03/2026
All projects The fiscal year 2026 appears to be flattening out a bit in the past week. 2/9
A line graph showing the number of NIH projects funded in fiscal year 2026 compared to fiscal years 2020-2025. The fiscal year 2026 curve lies below the other curves and appears to be flattening out somewhat.
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Saccharomyces Genome Database @yeastgenome.bsky.social · 02/03/2026
We are deeply saddened to share the news of the passing of David Botstein, a towering figure in modern #genetics and a foundational force behind SGD. www.yeastgenome.org/blog/in-memo... #yeast #modelOrganism
a headshot of David Botstein
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Christian Landry @christianlandry.bsky.social · 28/02/2026
New paper alert: Paralog interference contributes to the preservation of genetic redundancy www.cell.com/current-biol...
cell.com
Paralog interference contributes to the preservation of genetic redundancy
Duplicated self-interacting proteins can interact and interfere with each other’s function. Cisneros, Mattenberger, et al. show that selection against interfering loss-of-function alleles extends the ...
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Thibaut Brunet @thibautbrunet.bsky.social · 28/02/2026
Final version @nature.com of our paper describing unconventional multicellular development in a choanoflagellate inhabiting an extreme environment. A ton of new data since the first @biorxivpreprint.bsky.social preprint (which we've kept updating). A brief 🧵 (carried over from the old place)
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Maitreya Dunham @maitreya.bsky.social · 24/02/2026
Seattle locals: thesis defense Tuesday at 11:30 in Foege! Mapping the functional landscape of the pharmacogene CYP2D6 in Saccharomyces cerevisiae by Gabby Ferra, joint student between my lab and @kelleyharris.bsky.social
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Genetics Society of America @genetics-gsa.bsky.social · 05/02/2026
In #GENETICS, a new model developed by @christianlandry.bsky.social and colleagues examines how molecular dominance determines total protein activity and contributes to phenotypic dominance. buff.ly/CfaTDp7
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Jeremy Berg @jeremymberg.bsky.social · 05/02/2026
More on NSF funding data A deeper dive into the numbers of awards by Directorate. 1/9
media.tenor.com
a picture of a person in the water with the words call of the deep below it
ALT: a picture of a person in the water with the words call of the deep below it
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Matthew Berg @matthewberg22.bsky.social · 29/01/2026
Check out our new work now published in G3! We use proteomics and phosphoproteomics to study how cells cope with tRNA variants that mis-insert amino acids.
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Atlas of Variant Effects Alliance @varianteffect.bsky.social · 26/01/2026
We’re happy to share our 2025 Annual Report! A year of "momentum and connections"! ➡️ zenodo.org/records/1833... #AnnualReport #GlobalAlliance #FunctionalGenomics #VariantEffect #Community
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David Bartel's Lab @bartellab.bsky.social · 23/01/2026
We’re excited to share our latest preprint on the mechanism of excised linear intron stabilization in yeast! This work was led by PhD student @glennli.bsky.social and was a wonderful collaboration with @maxewilkinson.bsky.social. Link: www.biorxiv.org/content/10.6... (1/4)
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Isabel @isabelott.bsky.social · 25/01/2026
Thanks for everything, Dr. Foege. May we all work to be more diligent stewards of the legacy you left us: to work every day to care for all of our neighbors, present and future, a bit better than we did yesterday.
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Computational & Systems Biology Dept. at Pitt @csbpitt.bsky.social · 21/01/2026
Pitt researchers are raising the bar for microprotein discovery. By reassessing detection methods, Aaron Wacholder and Anne-Ruxandra Carvunis reveal why standardized protocols are essential for uncovering these elusive proteins' roles in health and disease. tinyurl.com/NatureWachol...
tinyurl.com
Community benchmarking and evaluation of human unannotated microprotein detection by mass spectrometry based proteomics - PubMed
Thousands of short open reading frames (sORFs) are translated outside of annotated coding sequences. Recent studies have pioneered searching for sORF-encoded microproteins in mass spectrometry (MS)-based proteomics and peptidomics datasets. Here, we assessed literature-reported MS-based identificati …
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Dr Kathleen Millen @neurodevkathy.bsky.social · 05/12/2025
Gratitutde to all NIH study section participants who are participating in rescheduled meetings now and in January. Thank you for your service and thanks also to the hard working NIH staff who are making these happen. 🥰🧪
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Jeremy Berg @jeremymberg.bsky.social · 08/01/2026
Here are the curves for the number of non-competitive renewal (Type 5) awards. The curve for fiscal 2026 lags behind earlier years. This lag is likely due to the extended government shutdown. 2/6
A line graph of the number of non-competitive renewal awards for fiscal year 2021 to 2026. The fiscal year 2026 is lagging behind the other years someone likely due to the extended government shutdown.
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David Bartel's Lab @bartellab.bsky.social · 06/01/2026
We are thrilled to share our latest work uncovering the mechanistic basis of target-directed microRNA degradation (TDMD). This work was driven by @jakobfarnung.bsky.social and @elenaslo.bsky.social in a fantastic collaboration with Brenda Schulman's lab. tinyurl.com/E3TDMD (1/5)
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David A Knowles @davidaknowles.bsky.social · 06/01/2026
Excited to see this out www.nature.com/articles/s41...! Nonparametric kernel-based tests for spatially variable isoform usage in spatial transcriptomics. So many interesting examples in the CNS and cancer, we're only scratching the surface!
nature.com
Mapping isoforms and regulatory mechanisms from spatial transcriptomics data with SPLISOSM - Nature Biotechnology
Differential isoform usage is identified with high statistical power from spatial transcriptomics data.
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Vaughn Cooper @vscooper.micropopbio.org · 13/12/2025
Yes: deleterious recessives aren’t completely recessive! An important study confirming intuitions from at least some of us.
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Fritz Roth @fritzroth.bsky.social · 12/12/2025
Silently nodding
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M. S. AtKisson @igrrrl.bsky.social · 07/12/2025
NIH Biosketches? Time to re-tool yet again. 1) Go to SciENcv if you have not yet set up your profile and do it. 2) Go to ORCID if you have not yet set up your profile and do it. 3) Prep a version of your Personal Statement and Contribution to Science in a separate document.
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Alex Cagan @atjcagan.bsky.social · 21/11/2025
Thrilled to announce that I'm on Curious Cases tomorrow at 10am on BBC Radio 4! The episode - Immortal Jellies - looks at some remarkably long-lived species and what they can teach us about ageing. This is a key area of focus for our lab. www.bbc.co.uk/sounds/play/...
bbc.co.uk
Curious Cases - Series 24 - Immortal Jellies - BBC Sounds
Hannah Fry and Dara Ó Briain ask whether a tiny jellyfish holds the secret to immortality.
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Shawn Fayer @shawnfayer.bsky.social · 22/11/2025
We highlight the power of iPSC-SGE by identifying sarcomere dependent variant effects of MYBPC3 in cardiomyocytes. Additionally, we identified dominant negative and LOF variant effects in POLG by assaying variants in multiple genetic backgrounds. Please see our preprint for more exciting results!
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Simon Pfisterer @spfisterer.bsky.social · 31/10/2025
It is a great honour to be part of this study! Congratulations to Daniel Tabet, @fritzroth.bsky.social and the entire team!! This is a huge step forward regarding functional studies of LDLR! www.science.org/doi/10.1126/... @helsinki.fi @eassociety.bsky.social
science.org
The functional landscape of coding variation in the familial hypercholesterolemia gene LDLR
Variants in the familial hypercholesterolemia gene LDLR—the most important genetic driver of cardiovascular disease—can raise circulating low-density lipoprotein (LDL) cholesterol concentrations and i...
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Jack Tamisiea @jack-tamisiea.bsky.social · 13/11/2025
110 million years ago, a spinosaur's dinner got the best of it. Turns out the dino's fossilized vomit contained a new species of filter-feeding pterosaur! I came across this paper a few days ago on social media and had a blast covering it for @science.org: www.science.org/content/arti...
science.org
Fossil vomit contains new species of pterosaur from Brazil
Filter-feeding flying reptile was likely devoured by a dinosaur during the early Cretaceous
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euanashley @euanashley.bsky.social · 01/11/2025
So excited about this new work from our CardioVar consortium out this week in Science led by the amazing Daniel Tabet and @fritzroth.bsky.social. www.science.org/doi/10.1126/
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W. Brent Derry @wbderry.bsky.social · 23/10/2025
Check out this cool new paper from my Toronto colleagues Kieran Campbell and Anne-Claude Gingras.
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Jeremy Berg @jeremymberg.bsky.social · 23/10/2025
Happy Mole Day for all who celebrate
A picture of a mole with masses of moles of water, iron, ixygen, salt, gold, and helium.
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Genetics Society of America @genetics-gsa.bsky.social · 21/10/2025
🎉 New in #GENETICS: Functional Genomics & Systems Biology section! Highlighting cutting-edge studies on molecular networks, systems-level insights, and innovative methods. Read more: buff.ly/wWVZdrS%F0%9...
buff.ly
Announcing the new “Functional Genomics and Systems Biology” section in GENETICS
The GSA Journals are introducing Functional Genomics and Systems Biology, a new section led by Brenda Andrews and Marian Walhout that highlights systems-level studies of genetic networks and pathways.
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Rebecca Sear @rebeccasear.bsky.social · 17/10/2025
Evidence that even when LLMs produce similar results to humans, they “rely on lexical associations and statistical priors rather than contextual reasoning or normative criteria. We term this divergence epistemia: the illusion of knowledge emerging when surface plausibility replaces verification”
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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The Francis Crick Institute @crick.ac.uk · 09/10/2025
We're now recruiting early career group leaders at the Crick to lead ambitious research programmes and explore bold scientific questions. Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research. Apply now ➡️ www.crick.ac.uk/careers-stud...
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Atlas of Variant Effects Alliance @varianteffect.bsky.social · 26/09/2025
📣Call for Abstracts for the Mutational Scanning Symposium! #VariantEffect26 🗓️ March 25-27, 2026 📍 Melbourne, Australia (and online!) 📝 Submit your abstract (deadline is Nov 2nd, 2025!) ➡️ Registration is also now open!! ℹ️ www.mss2026.org #FunctionalGenomics #Symposium #Australia #CallForAbstracts
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Atlas of Variant Effects Alliance @varianteffect.bsky.social · 01/10/2025
We are #Hiring! Communications role for our Global Alliance! 🌍🧬 Please share this post with your network, or apply if you are interested! 📍 Location: Hinxton, England 🕒 Part-time role ℹ️ sanger.wd103.myworkdayjobs.com/en-US/Wellco... #ScienceJobs #Communications #Genomics #PartTimeRole #UKJobs
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