Jason Buenrostro

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 ...

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...

Induction of menstruation in mice reveals the regulation of menstrual shedding During menstruation, an inner layer of the endometrium is selectively shed, while an outer, progenitor-containing layer is preserved to support repeated regeneration. Progress in understanding this co...

I’m thrilled to share my postdoc work and the first paper from the McKinley Lab! 🎉
@karalmckinley.bsky.social
We built the first transgenic model of menstruation in mice.
We used it to uncover how the endometrium organizes and sheds during menstruation. 🧪
www.biorxiv.org/content/10.1...
🧵

Induction of menstruation in mice reveals the regulation of menstrual shedding During menstruation, an inner layer of the endometrium is selectively shed, while an outer, progenitor-containing layer is preserved to support repeated regeneration. Progress in understanding this co...

Congratulations @karalmckinley.bsky.social & lab on their groundbreaking recent preprint establishing + characterizing a chemically inducible model of menstruation in mouse:

www.biorxiv.org/content/10.1...

My jaw dropped when I heard this presented earlier this year. Incredible.

Jason Buenrostro named core institute member at Broad An expert in epigenetics and longtime member of the Broad community, Buenrostro will focus on how life experiences can alter the epigenome and increase risk of disease.

Leading epigenetics researcher and longtime Broad member
@jbuenrostro.bsky.social has been named core institute member of the Broad. His lab will study how cells change in response to life experiences, and how those alterations affect health and disease.

One last thing - I am on the job market! My lab will extend this approach to decode resilient chromatin: adaptations in proteins/DNA that allow for survival in harsh environments. These hold the 🔑 to designing cells that thrive under stress, esp. as we push the limits of where we take them ❄️🚀🪐🌱9/9

Engineered histones reshape chromatin in human cells Histone proteins and their variants have been found to play crucial and specialized roles in chromatin organization and the regulation of downstream gene expression; however, the relationship between ...

Huge thanks to all co-authors and the inimitable @jbuenrostro.bsky.social for supporting this new direction - I got to think about evolution, engineering, chromatin biophysics, and modeling during the course of this project. For more, check out the preprint: www.biorxiv.org/content/10.1... 8/9

Excited to share my postdoc work, out on bioRxiv today! Histones package DNA into nucleosomes to form the building blocks of chromatin, but how modular and programmable is this system? 1/9

Had a super week filled with great science, curiosity and discussions at this year's Gordon Research Conference on Human genetics and genomics. Also fun when you get to give a talk the same day as your postdoc advisor @jbuenrostro.bsky.social

The 2025 Freeman Hrabowski Scholars | HHMI Freeman Hrabowski Scholars are outstanding early career faculty who have the potential to become leaders in their research fields.

Honored to be an HHMI FHS! Grateful to brilliant colleagues who push me to think deeply, and to my students whose curiosity & energy make the lab a joy.

My grad advisor said in genetic screens, you don’t get what you want—you get what you deserve. Hope we are deserving

www.hhmi.org/programs/fre...

Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation Microscopy and genomics are used to characterize cell function, but approaches to connect the two types of information are lacking, particularly at subnuclear resolution. Here, we describe expansion i...

Epigenetics Update - Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation bit.ly/4jtXApb

Jason D. Buenrostro (MIT/Harvard) reporting in Science

#Epigenetics #Chromatin
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Gain deeper insights into gene regulation; epigenometech.com

Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation Microscopy and genomics are used to characterize cell function, but approaches to connect the two types of information are lacking, particularly at subnuclear resolution. Here, we describe expansion i...

@science.org Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation | Science www.science.org/doi/10.1126/...
@jbuenrostro.bsky.social @eboyden3.bsky.social + al @broadinstitute.org @harvard.edu
#ExIGS #Chromatin #Lamin #Progeria #Aging #ExpansionMicroscopy

A new combination technique enables DNA sequencing and high-resolution imaging in intact cells — offering new insights into progeria and aging. broad.io/expansion-in-situ @jbuenrostro.bsky.social

A lot of fun teaming up with Hsin and Howard on this, with key contributions from @ruochiz.bsky.social, @zchiang.bsky.social, and @jbuenrostro.bsky.social on the tech dev and @mattjones.bsky.social, Natasha Weiser, and Paul Mischel on the ecDNA analysis. (5/5)

Disease diagnostics using machine learning of B cell and T cell receptor sequences Clinical diagnosis typically incorporates physical examination, patient history, various laboratory tests, and imaging studies but makes limited use of the human immune system’s own record of antigen ...

Disease diagnostics using machine learning of B cell and T cell receptor sequences

www.science.org/doi/10.1126/...

TL;DR: BCRs ARE ALL YOU NEED!

(Well actually .... keep reading) 1/

We’d like to thank our collaborators in the Yilmaz and Breault labs, and PROSPECT @cancerresearchuk.org / NCI for their support. Find out about binding partners, drugging AP-1, the new tools we made and more here at our pre-print: tinyurl.com/ColitisNagar... (14/14)

New to bluesky, but I’m excited to share my work over the last few years with @jbuenrostro.bsky.social! Chronic inflammation creates an epigenetic memory in colonic stem cells, priming them for tumor growth: tinyurl.com/ColitisNagar.... Here’s a walkthrough of what we found (🧵)

To help people understand the importance of NIH, share what you’ve used their funding for (in easily understandable terms).

I’ll start: my NIH postdoc funding helped me develop and test AI tools that could identify skin cancer across diverse skin tones.

Hey Jeff, just to clarify, we performed a genome wide analysis across all cell types seen in BMMCs. The results are quantified in Figure 3c. There’s also more examples in Ext Figure 6. Feel free to shoot me a message if you’re interested, could be fun to discuss.

"cryoET" ? (h/t Jon Perr in my lab) #CryoET #TeamTomo

Multiscale footprints reveal the organization of cis-regulatory elements - Nature We developed PRINT, a computational method that identifies footprints of DNA–protein interactions from bulk and single-cell chromatin accessibility data across multiple scales of protein size.

Super excited to share our new study from the @jbuenrostro.bsky.social Lab in @nature.com! We developed a computational method for tracking transcription factor and nucleosome binding using single-cell ATAC-seq and deep learning.
Paper: www.nature.com/articles/s41...

‘Expansion microscopy’ turns ten: how a tissue-swelling method brought super-resolution imaging to the masses A decade in, expansion microscopy is unlocking insights across biology and medicine.

A decade in, expansion microscopy is unlocking insights across biology and medicine

https://go.nature.com/4adlNgg

I’m celebrating tonight with my father in law, Jack Strominger, who is about to enjoy his 100th New Years!

He wants to know whether any other scientist has published in their 100th year. He’s proud to have a paper in the works. I told him you all would know! Please RT

Our ChromBPNet preprint out!

www.biorxiv.org/content/10.1...

Huge congrats to Anusri! This was quite a slog (for both of us) but we r very proud of this one! It is a long read but worth it IMHO. Methods r in the supp. materials. Bluetorial coming soon below 1/

Spatial transcriptomic clocks reveal cell proximity effects in brain ageing Nature - A spatially resolved single-cell transcriptomics map of the mouse brain at different ages reveals signatures of ageing, rejuvenation and disease, including ageing effects associated with T...

Thrilled to see this paper out!! 🧪

Spatial transcriptomics of brain aging and 'spatial aging clocks' identify cells that have pro-aging or pro-rejuvenating effects on their neighbors!

Huge CONGRATS to Eric Sun and all authors! Fantastic collaboration with @jameszou.bsky.social!

rdcu.be/d33uQ 🧵

🧪 E11 Bio is excited to share a major step towards brain mapping at 100x lower cost, making whole-brain connectomics at human & mouse scale feasible (🧠→🔬→💻). Critical for curing brain disorders, building human-like AI systems, and even simulating human brains.

Read more: e11.bio/news/roadmap

The BRAIN initiative: a pioneering program on the precipice - Nature Neuroscience Launched in 2013, the BRAIN Initiative (BRAIN) in the United States aimed to unlock the mysteries of the brain and develop new treatments for neurological and neuropsychiatric disorders. The success o...

Important piece on the future of a critical US investment www.nature.com/articles/s41...

Happy for my former mentor Howard Chang, congratulations Howard!:
www.amgen.com/newsroom/pre...

If others have ways of getting around the very poor recall of fine mapping methods + their instability across populations, we would love to know.

Of course GWAS causal variants can affect RNA processing/ translation in which case they won't be found in coding or transcriptional regulatory elements but rather 5', 3'UTRs and splice sites. But a large proportion do enrich in open chromatin but fine mapping methods are quite terrible.