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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’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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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
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 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
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
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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Kushal K. Dey @kanishkadey.bsky.social · 25/09/2025
Introducing Spacelink, a unified framework for identifying and prioritizing spatially variable gene programs at tissue and cell type resolution and linking them to disease GWAS studies. Led by Hanbyul Lee & Haochen Sun www.biorxiv.org/content/10.1...
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Leif S. Ludwig @leifludwig.bsky.social · 24/09/2025
🚨 New preprints from our lab!
First, we introduce Cryo-mtscATAC-seq, led by Maren (@ms-maren.bsky.social ), enabling high-throughput clonal tracing from frozen human samples by isolating nuclei with their mitochondria (“CryoCells”).
👉 www.biorxiv.org/content/10.1...
biorxiv.org
Cryo-mtscATAC-seq for single-cell mitochondrial DNA genotyping and clonal tracing in archived human tissues
High-throughput clonal tracing of primary human samples relies on naturally occurring barcodes, such as somatic mitochondrial DNA (mtDNA) mutations detected via single-cell ATAC-seq (mtscATAC-seq). Fr...
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Kamil Slowikowski @slowkow.com · 23/09/2025
I'd like to announce the medRxiv preprint of our latest work: A multimodal atlas of COVID-19 severity identifies hallmarks of dysregulated immunity. www.medrxiv.org/content/10.1...
Overview of a research study about COVID-19. The study includes three cohorts: (1) 351 acute COVID-19 patients across 5 severity levels and 3 time points profiled by multiple modalities, (2) 4 acute COVID-19 patients treated with tocilizumab, (3) 73 patients, 43 of whom were previously infected with SARS-CoV-2 3 months ago. The overview shows the general study design and visualizations of the single-cell RNA sequencing data analyzed in this study.
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derek guy @dieworkwear.bsky.social · 23/09/2025
my mom took tylenol when she was pregnant, which made me super focused on menswear and now i have a million followers on twitter
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bioRxiv Genomics @biorxiv-genomic.bsky.social · 20/09/2025
Mapping transcriptional responses to cellular perturbation dictionaries with RNA fingerprinting www.biorxiv.org/content/10.1101/202…
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Jesse Engreitz @jengreitz.bsky.social · 19/09/2025
New preprint from our lab! What can we learn about the properties of gene regulatory elements by CRISPR’ing a random set of accessible sites in human cells? Find out here: www.biorxiv.org/content/10.1... 👇 1/
bioRxiv - An unbiased survey of distal element-gene regulatory interactions with direct-capture targeted Perturb-seq
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Nature Methods @natmethods.nature.com · 18/09/2025
GPU-accelerated MMseqs2 offers tremendous speedup for homology retrieval, protein structure prediction with ColabFold, and protein structure search with Foldseek. @martinsteinegger.bsky.social @milot.bsky.social @machine.learning.bio www.nature.com/articles/s41...
nature.com
GPU-accelerated homology search with MMseqs2 - Nature Methods
Graphics processing unit-accelerated MMseqs2 offers tremendous speedups for homology retrieval from metagenomic databases, query-centered multiple sequence alignment generation for structure predictio...
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Sanford Burnham Prebys NCI-Designated Cancer Center @sbpcancercenter.bsky.social · 16/09/2025
Today 62 National Cancer Institute (NCI)-Designated Cancer Centers released a statement reinforcing the importance of HPV vaccination. HPV vaccination is safe and protects against six types of cancer – including oropharyngeal, cervical, and anal cancers. #HPVvaccine #HPVvax #EndHPVCancers
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Collins Genomics Lab @collinsgenomics.bsky.social · 16/09/2025
📢We are hiring! The Collins Genomics Lab @danafarber.bsky.social is looking to hire two postdoctoral fellows One in hereditary and early-onset adult cancers: careers.dana-farber.org/job/12158/po... 1/2🧵
careers.dana-farber.org
Research Laboratory Job: Postdoctoral Research Fellow - Computational Biologist at Dana-Farber Cancer Institute in 450 Brookline Ave, Boston, MA
Postdoctoral Research Fellow - Computational Biologist job
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MSKEducation @mskeducation.bsky.social · 15/09/2025
🎉 Congratulations to our 10 MSK Postdoc Slam finalists! 👏 You were all fantastic and it was truly inspiring to learn about the incredible and diverse work happening at @mskcancercenter.bsky.social. Our #MSKPostdocs gave the judges a real challenge… choosing winners was no easy task! 🤗 #NPAW2025
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Danwei Huangfu @danweihuangfu.bsky.social · 11/09/2025
Now accepting applications for our 2026 Cancer Biology & Cancer Engineering programs. Aspiring scientists & engineers will solve fundamental problems in biology & conduct research & develop technology that will help understand, diagnose, & treat cancer. bit.ly/3WUiuo1
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Memorial Sloan Kettering Cancer Center @mskcancercenter.bsky.social · 07/09/2025
MSK’s Gerstner Sloan Kettering Graduate School of Biomedical Sciences is now accepting applications for its Cancer Biology and Cancer Engineering #PhD programs for the 2026 academic year. Apply below:
sloankettering.edu
Admission to the PhD Programs
Gerstner Sloan Kettering offers a unique opportunity to train with some of the world’s leading researchers while developing a deep understanding of today’s clinical challenges. We are looking for high...
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Caleb Lareau @caleblareau.bsky.social · 03/09/2025
The totality of humanity’s (public) sequencing data is now at your fingertips. This is an absolutely monumental resource for genomics research! Congratulations @rayanchikhi.bsky.social @rnalab.bsky.social on this incredible feat!!!
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Rayan Chikhi @rayanchikhi.bsky.social · 03/09/2025
Logan rapidly accesses the tapestry of Life’s genetic diversity and can help solve global issues. To tackle the microplastic crisis, we searched Logan for new versions of the 213 known plastic-degrading enzymes. We identified 200+ million homologs 🤯, including new high-efficiency enzymes 🥤🔥
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Rayan Chikhi @rayanchikhi.bsky.social · 03/09/2025
🌎👩‍🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵 Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open. doi.org/10.1101/2024...
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Fred Hutch Innovation Lab @hutchinnovation.bsky.social · 02/09/2025
Banking fixed samples before sorting improves experiment planning & instrument scheduling. 10x GEM-X DSP-based fixation recommends sorting before fixing cells. We attempted to stain, fix, and freeze cells before sorting & generating GEMs for 5' libraries. SFFS = STAIN FIX FREEZE SORT (1/7)
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Cory Booker @corybooker.com · 29/08/2025
Love thy neighbor.
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