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Caleb Lareau

@caleblareau.bsky.social
1.2K followers 468 following 78 posts

assistant professor @mskcancercenter.bsky.social clareaulab.com

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Caleb Lareau @caleblareau.bsky.social · 09/09/2026
Out today! I could not be more proud of @arthurwchow.bsky.social @hoyinchu.bsky.social and Betty Li for their fearless efforts to understand how to use diffusion models to enable a new generation of cell therapies! read more here-
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Waggoner Lab @labwaggoner.bsky.social · 19/08/2026
@nature.com Matters Arising @caleblareau.bsky.social @leifludwig.bsky.social Artefacts in single-cell mtDNA analyses misinform phylogenies www.nature.com/articles/s41... on www.nature.com/articles/s41... response @bloodgenes.bsky.social www.nature.com/articles/s41...
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
We promise that GIFT is something that you're going to want to unwrap soon-- we've been floored by how well this method works. Check out the preprint to learn more! www.biorxiv.org/content/10.6... 8/n
media.tenor.com
two young boys standing in front of a box that says family on the wall behind them
ALT: two young boys standing in front of a box that says family on the wall behind them
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
It's cool to see we aren't the only ones that think rationally designed probes + gapfilling is the future. Check out a corroborating workflow from @mgrillo.bsky.social, @lgmartelotto.bsky.social, Anna Nam, and colleagues: bsky.app/profile/mgri... 7/n
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
I lied-- here's a fourth thing you should know. GIFT is fully loaded and ready to go in your lab. > The experimental protocol is fully open-sourced. > We have 3 git repos for probe design, parsing, and downstream analyses > We've validated it in primary samples and preserved FFPE tissues 6/n
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
3. This design enables genotyping hundreds of loci in individual cells at an accuracy much higher than other workflows for genotyping off of flex. GIFT simply works incredibly well. 5/n
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
2. GIFT builds on the 10x Genomics Flex kit, enabling a multi-step combinatorial barcoding that scales cell capture for genotype-to-phenotype mapping by ~an order of magnitude. 4/n
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
The three things you need to know: 1. GIFT uses short DNA probes to enable genotyping anywhere in a transcript and reads out potential mutations with a short 'gapfilling' reaction between adjacent probes. 3/n
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
At the risk of duplicating a fairly long primer on the method, I'll share some of the highlights here but refer everyone to this thread on twitter/X 2/n x.com/CalebLareau/...
x.com
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Caleb Lareau @caleblareau.bsky.social · 13/04/2026
We’re unwrapping a new method today at @mskcancercenter.bsky.social. Led by Sydney Blattman, Nabih Maslah, and @austinv11.com with @danapeer.bsky.social, @ronanchaligne.bsky.social and @10xgenomics.bsky.social, we present GIFT: Genotyping In Fixed Transcriptomes www.biorxiv.org/content/10.6... 1/n
biorxiv.org
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Jelle van den Ameele @jellevda.bsky.social · 03/04/2026
Really pleased to see this out @natsmb.nature.com: www.nature.com/articles/s41.... MitoPerturb-Seq combines #singlecell #CRISPR screening with whole-cell Multiome, to identify nuclear modifiers of mtDNA dynamics. @mitocamb.bsky.social @mrc-mbu.bsky.social @prudentlab.bsky.social and Stephen Burr
nature.com
MitoPerturb-Seq identifies gene-specific single-cell responses to mitochondrial DNA depletion and heteroplasmy - Nature Structural & Molecular Biology
Burr and Auckland et. al develop MitoPerturb-Seq, which combines single-cell screening with multiomics to link nuclear genes to mitochondrial DNA (mtDNA) dynamics. They unveil core regulators of mtDNA...
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Mariko Bennett @nachoriko.bsky.social · 24/03/2026
I defended my PhD 10 years ago today. That was the least remarkable thing that happened that day. Sharing something I wrote about it last year. Since then "the horrors persist but so do we." And with dignity.
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Colette Delawalla, PhD @cdelawalla.bsky.social · 16/03/2026
Breast cancer mortality dropped 58% from 1975 to 2019. Localized, early detected breast cancer has a 99% 5 year survival rate. Modern mammogram tech was developed by NASA for telescopes. Last year, RFK Jr. cancelled 87 research grants on breast cancer. www.nytimes.com/2026/03/16/u...
nytimes.com
Susie Wiles, Trump’s White House Chief of Staff, Has Breast Cancer
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Justin Perry - Perry Lab @justinperryphd.bsky.social · 24/02/2026
Those who know me, know I’m not someone who changes his preferences & behaviors lightly. As Ron Swanson said, “I regret nothing. The end.” Well, let me tell you about our new study, out from The Perry Lab @mskcancercenter.bsky.social in @cp-immunity.bsky.social, which is the exception. /1
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Kerstin Ludwig @kuludwig.bsky.social · 19/02/2026
🖨️ Hot off the press 🍾 : I am super excited to share that our article on the host control of persistent EBV infection has just been published in Nature Magazine, in an accelerated article preview version: rdcu.be/e4Lg8
rdcu.be
Host control of persistent Epstein–Barr virus infection
Nature - Host control of persistent Epstein–Barr virus infection
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Harry Wright @hiwwright.bsky.social · 06/02/2026
Excited to share my first preprint on federated conditional analysis of rare single variant and aggregate association tests across six genetically-inferred ancestry groups in All of Us and UK Biobank doi.org/10.64898/202...
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Stephen Turner @stephenturner.us · 04/02/2026
Preprint from @lpachter.bsky.social lab argues journals should treat results as machine-readable objects, not just PDFs. Narratives stay for humans, but claims, evidence, and evaluations should ship in structured form so machines can index and verify. www.biorxiv.org/content/10.6... 1/ 🧵
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Caleb Lareau @caleblareau.bsky.social · 31/01/2026
I feel like vegemite jokes are an untapped market wdyt @psmibert.bsky.social
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Caleb Lareau @caleblareau.bsky.social · 29/01/2026
Thanks for the enthusiastic support and charting the path 🙏
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Waggoner Lab @labwaggoner.bsky.social · 28/01/2026
Re-analysis of human population-scale whole genome seq data elucidates genetic architecture of EBV DNA persistence, a framework for the broader human virome @nature.com @caleblareau.bsky.social @sherrynyeo.bsky.social @erinmayc.bsky.social @ryandhindsa.bsky.social www.nature.com/articles/s41...
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Ryan Dhindsa @ryandhindsa.bsky.social · 28/01/2026
This was a fun and rewarding collaboration! A great example of extracting biological signal from data hiding in plain sight
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Caleb Lareau @caleblareau.bsky.social · 28/01/2026
There is also a wonderful summary of our work (including some important limitations) from Kristen Wade & Jill Hollenbach www.nature.com/articles/d41...
nature.com
Scraps of viral DNA in biobank samples reveal secrets of Epstein–Barr virus
Viral DNA that is usually dismissed when sequencing the human genome could help to uncover useful information about complex diseases.
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Caleb Lareau @caleblareau.bsky.social · 28/01/2026
EBV infection is a major detriment to human health. @ryandhindsa.bsky.social, Slavé, and I discussed the impact of this work with @bloomberg.com and some future outlooks www.bloomberg.com/news/article...
bloomberg.com
Scientists Inch Closer to Solving the ‘Kissing Disease’ Mystery
Scientists have identified 22 genes that increase the risk of conditions like lupus, stroke, and rheumatoid arthritis in patients who’ve caught the virus behind mono, an illness known as the “kissing ...
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Caleb Lareau @caleblareau.bsky.social · 28/01/2026
What's been particularly gratifying about this study is the corroboration by independent groups that have arrived at complementary conclusions. Those preprints are here: www.medrxiv.org/content/10.1... www.biorxiv.org/content/10.1... www.medrxiv.org/content/10.6...
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Caleb Lareau @caleblareau.bsky.social · 28/01/2026
Our prior thread digesting this work is available here. The key findings are the same from the preprint, but there's a boatload of new analyses for corroboration and interpretation of this new biomarker. bsky.app/profile/cale...
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Caleb Lareau @caleblareau.bsky.social · 28/01/2026
Today in @nature.com, we describe how discarded reads in biobank-scale WGS can help resolve the genetic predictors and consequences of Epstein-Barr Virus (EBV) infection. Wonderful working with @ryandhindsa.bsky.social @sherrynyeo.bsky.social @erinmayc.bsky.social www.nature.com/articles/s41...
nature.com
Population-scale sequencing resolves determinants of persistent EBV DNA - Nature
Population-scale WGS reveals genetic determinants of persistent EBV DNA, linking immune regulation—especially antigen processing and MHC class II variation—to EBV persistence and heterogeneous di...
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Roland Dunbrack 🏳️‍🌈 @rolanddunbrack.bsky.social · 19/01/2026
The Cancer Signaling & Microenvironment Program at Fox Chase Cancer Center is looking for tenure track faculty (assist./assoc./full) in computational & experimental protein design. CV & 3-page research statement by Feb 15. More info here: www.linkedin.com/feed/update/... Questions: DM/Email me.
linkedin.com
Now hiring: Tenure-track faculty (Asst/Assoc/Full) in Computational & Experimental Protein Design at Fox Chase Cancer Center, Philadelphia PA   Join the Cancer Signaling & Microenvironment Pro...
Now hiring: Tenure-track faculty (Asst/Assoc/Full) in Computational & Experimental Protein Design at Fox Chase Cancer Center, Philadelphia PA   Join the Cancer Signaling & Microenvironment Program at ...
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Jase Gehring @skyjase.bsky.social · 12/01/2026
i see this all the time with no mention of structural suppression: - Electoral College winner-take-all - working day elections - voter registration burden turnout in battleground states is fairly high. people aren't lazy. they are responding to disincentivization and disenfranchisement.
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Caleb Lareau @caleblareau.bsky.social · 14/12/2025
We've summarized a detailed thread on this work over on X/Twitter (x.com/CalebLareau/...). As newcomers to this protein design field, we’d very much welcome thoughts, feedback, missing citations, or ideas on how to steer this work next!
x.com
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Caleb Lareau @caleblareau.bsky.social · 14/12/2025
We are very excited to share the first preprint of a new direction for our group. Led by the fearless duo of @arthurwchow.bsky.social and @hoyinchu.bsky.social, our foray into computational protein design—
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Caleb Lareau @caleblareau.bsky.social · 03/11/2025
If you are able, please consider donating to our team’s effort. 100% of your donations support riot work for a cure! secure2.convio.net/mskcc/site/T...
secure2.convio.net
Fred's Team
Support cancer research at Memorial Sloan Kettering Cancer Center.
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Caleb Lareau @caleblareau.bsky.social · 03/11/2025
I had an unbelievable first time running the NYC Marathon with @fredsteammskcc.bsky.social and @mskcancercenter.bsky.social! Shout out to the lab for supporting us!
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Caleb Lareau @caleblareau.bsky.social · 31/10/2025
Typical day in lab honestly
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Caleb Lareau @caleblareau.bsky.social · 31/10/2025
The squad 🍌🍌🍌
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Caleb Lareau @caleblareau.bsky.social · 31/10/2025
We have some BIG PLANS TONIGHT!!! with @ronanchaligne.bsky.social @mskcancercenter.bsky.social
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Memorial Sloan Kettering Cancer Center @mskcancercenter.bsky.social · 21/10/2025
We're excited to share that Dr. Omar Abdel-Wahab, a leukemia specialist at MSK, has been elected to the @nam.edu. With Dr. Abdel-Wahab’s appointment, a total of 28 MSK faculty members have been conferred with this recognition. Congratulations, Dr. Abdel-Wahab! bit.ly/49ezKw0
bit.ly
Memorial Sloan Kettering Cancer Center Physician-Scientist Elected to the Prestigious National Academy of Medicine
Omar Abdel-Wahab, MD, Chair of the Molecular Pharmacology Program at Sloan Kettering Institute (SKI); Evnin Family Chair in Molecular Pharmacology and Attending Physician on the Leukemia Service at Me...
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Fred Wellman @fpwellman.bsky.social · 18/10/2025
Zero arrests. 100,000 people. No violence. This who we are.
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Caleb Lareau @caleblareau.bsky.social · 18/10/2025
#nokings #nyc #weareallthefrog
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Jenna Norton @jenna-m-norton.bsky.social · 16/10/2025
Penn and USC have also rejected the Compact! That makes 4 - stronger together. www.insidehighered.com/news/faculty...
insidehighered.com
Penn, U. of Southern California Reject Trump Compact
The universities follow the Massachusetts Institute of Technology and Brown University in rejecting the Trump administration’s proposal that would require sweeping changes.
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Olivier Simard-Casanova @o.simardcasanova.net · 11/10/2025
The data is from April but holy moly
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Michele Frison @frisophagy.bsky.social · 10/10/2025
How can mitophagy be an effective quality control mechanism if mtDNA mutations reach high enough levels to cause disease? This question led us into a dark path, full of concepts of evolutionary genetics, germline stem cell biology and mito-nuclear compatibility. www.science.org/doi/10.1126/...
science.org
Ubiquitin-mediated mitophagy regulates the inheritance of mitochondrial DNA mutations
Mitochondrial synthesis of adenosine triphosphate is essential for eukaryotic life but is dependent on the cooperation of two genomes: nuclear and mitochondrial DNA (mtDNA). mtDNA mutates ~15 times as...
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Jacob Schreiber @jmschreiber91.bsky.social · 07/10/2025
Now that I'm settled in at @umasschan.bsky.social, I'm hiring at all levels: grad students, post-docs, and software engineers/bioinformaticians! The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
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Jörg Vogel @jorg-vogel-lab.bsky.social · 08/10/2025
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
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Ryan Flynn @raflynn5.bsky.social · 07/10/2025
We’re excited to report work led by postdoc Jennifer Porat in the lab, finding that DNA accumulates on the surface of living cells and that the secreted extracellular protein DNASE1L3 can modulate its levels on B and T cells. With a new twist for ATAC-seq as well www.biorxiv.org/content/10.1...
biorxiv.org
DNASE1L3 surveils mitochondrial DNA on the surface of distinct mammalian cells
The extracellular space is a critical environment for discriminating self versus non-self nucleic acids and initiating the appropriate immune responses through signaling cascades to relay information ...
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BK. Titanji @boghuma.bsky.social · 06/10/2025
A new Nature Medicine study analyzing health records from >100 million people in the US offers compelling evidence that reactivation of varicella-zoster virus (VZV) ,the same virus that causes chickenpox and shingles may contribute to dementia risk. www.nature.com/articles/s41...
nature.com
Varicella-zoster virus reactivation and the risk of dementia - Nature Medicine
Large-scale longitudinal health records reveal consistent association of varicella-zoster virus reactivation with dementia.
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Nature @nature.com · 06/10/2025
BREAKING: The Nobel Prize in Physiology or Medicine has been awarded jointly to Mary E. Brunkow, Fred Ramsdell, and Shimon Sakaguchi "for their discoveries concerning peripheral immune tolerance" Stay tuned for more. #NobelPrize
A photo of a Nobel medal
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Jenna Norton @jenna-m-norton.bsky.social · 04/10/2025
Great article from @stephaniemlee.bsky.social at @chronicle.com on the NIH Autism Data Science Initiative (ADSI) www.chronicle.com/article/what... ADSI funding went to reputable scientists because and only because dedicated NIH civil servants fought hard to ensure a rigorous, science-based process.
chronicle.com
What It’s Like to Be an Autism Scientist Funded by the Trump Administration
The government is funding respected scholars to study autism’s causes, at a time when experts say it’s also sowing misinformation about the same topic.
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Duncan Kountz @dkountz.bsky.social · 28/09/2025
Does anyone have a good, reasonably up-to-date review of cryo-EM uses and methodology for (relatively) high-resolution protein structure determination? For someone who doesn't have a cryo-EM background.
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I-75 Scientist @flscitriguy.bsky.social · 26/09/2025
Reminder starting in October NIH NOFOs won’t be posted in the Guide for grants and contracts. Tips on how to search for opportunities & set up a subscription for custom searches here: grants.nih.gov/news-events/...
grants.nih.gov
New Tool to Explore NIH Grant Opportunities | Grants & Funding
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