Sign in

Hattie Chung

@hattaca.bsky.social
1.6K followers 419 following 28 posts

Assistant Professor @YaleMed | tissue homeostasis, machine learning, systems biology | www.hattiechunglab.bio

PostsRepliesMedia
Hattie Chung @hattaca.bsky.social · 19/06/2026
How does aging reshape a tissue that must continually rebuild itself hundreds of times? Our latest: Using spatial transcriptomics, we find that ovarian aging disrupts the coordination of cells across space and time before reproductive cycles stop. #OvarianAging
093
Hattie Chung @hattaca.bsky.social · 15/04/2026
Congratulations to our PhD student Chelsea Lai, who was awarded an NSF GRFP earlier this week!
0100
Reposted by Hattie Chung
Kara McKinley @karalmckinley.bsky.social · 10/10/2025
Lab’s 1st preprint! Menstruation is understudied due to societal taboos + a biological challenge: mice (a key system for research + drug discovery) don’t menstruate. @cagricevrim.bsky.social made menstruating mice + used them to discover early events in menstruation. He is on the job market!
1830490
Reposted by Hattie Chung
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...
22411
Reposted by Hattie Chung
Society for Developmental Biology @socdevbio.bsky.social · 22/08/2025
✨If Monet studied mouse ovaries 🎨 Stromal cells 💜 Follicular cells 🔵 and Fatty Cells 🟡. Together, they reveal the cellular architecture and functional zones of the ovary 🔬 Image provided by @shmimberly.bsky.social 🧪 #FluorescenceFriday #ReproductiveBiology
07815
Reposted by Hattie Chung
Bluma Lesch @ambystoma22.bsky.social · 20/08/2025
New paper on the role of H3K4me3 at enhancers! We (led by Haoming Yu) used dCas9 epigenome editing to add H3K4me3 to intergenic enhancers. This was (1) sufficient to turn up transcription at open, active regions and (2) has no effect on target gene transcription. genesdev.cshlp.org/content/earl...
genesdev.cshlp.org
H3K4me3 amplifies transcription at intergenic active regulatory elements
A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields
38433
Hattie Chung @hattaca.bsky.social · 08/08/2025
Our lab at Yale @yalemedicine.bsky.social seeks #postdocs with in vivo expertise to pioneer research at the intersection of tissue remodeling & aging. Work with us to uncover immunological & vascular drivers of ovarian aging, applying single-cell, spatial omics, and ML! jobrxiv.org/job/yale-uni...
jobrxiv.org
Postdoctoral Fellow, Hattie Chung Lab (Yale School of Medicine)
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
1148
Reposted by Hattie Chung
Paul Macklin @mathcancer.bsky.social · 28/07/2025
Really excited to share our new @cellpress.bsky.social Cell paper with @fertiglab.bsky.social and colleagues. 1/n www.cell.com/cell/fulltex... @jktgfoundation.bsky.social @itcrtraining.bsky.social @smbmathbiology.bsky.social #mathbio #mathonco @mathonco.bsky.social @deniswirtz.bsky.social
cell.com
Human interpretable grammar encodes multicellular systems biology models to democratize virtual cell laboratories
We developed a plain text modeling language—a cell behavior hypothesis grammar—to easily build virtual cell models and connect them to data, helping scientists to unlock the hidden dynamics of tissues...
35620
Hattie Chung @hattaca.bsky.social · 31/07/2025
Excited to share that we've received an NIH R35 MIRA! This grant will support our work building tools to study how cell states change over space and time in disease. Grateful to our community, and especially the wonderful team I get to work with. @yalecvrc.bsky.social
4402
Reposted by Hattie Chung
Rita Strack @ritastrack.bsky.social · 06/06/2025
Pluripotent stem cells that differentiate into vascularized cardiac and hepatic organoids. Wow! www.science.org/doi/10.1126/...
science.org
Gastruloids enable modeling of the earliest stages of human cardiac and hepatic vascularization
Although model organisms have provided insight into the earliest stages of cardiac and hepatic vascularization, we know very little about this process in humans because of ethical restrictions and the...
0308
Reposted by Hattie Chung
Eric Topol @erictopol.bsky.social · 04/06/2025
Microvascular obstruction is known to be a #LongCovid feature. Now a potential mechanism found for the obstruction induced by death of endothelial cells->sticky red blood cells. Which wouldn't respond to blood thinners or anti-platelet Rx www.nature.com/articles/d41... www.nature.com/articles/s41...
25380143
Reposted by Hattie Chung
Eric Topol @erictopol.bsky.social · 02/06/2025
Our ability to accurately determine an individual's risk for heart and vascular disease is getting transformed —New A.I. transformer model www.thelancet.com/journals/lan... —Meta-prediction www.nature.com/articles/s41...
39318
Reposted by Hattie Chung
Lars Velten @larsplus.bsky.social · 21/05/2025
Out @nature.com: Clonal tracing with somatic epimutations 🧬 Single cell methylome encodes cell state & clonal identity 🔨 EPI-Clone reads out both (+mutations, +RNA) at scale 🩸 Clonal expansions of HSCs are universal from age 50, not driven by CH mutations doi.org/10.1038/s415... 🧵
doi.org
Clonal tracing with somatic epimutations reveals dynamics of blood ageing - Nature
The discovery that DNA methylation of different CpG sites can serve as digital barcodes of clonal identity led to the development of EPI-Clone, an algorithm that enables single-cell lineage tracing th...
712742
Reposted by Hattie Chung
Caroline Bartman @cbartman.bsky.social · 20/05/2025
title of assistant professor's talk: amino acid metabolism of effector T cells in LCMV infection title of senior full professor's talk: Why do cells eat?
7829
Reposted by Hattie Chung
Eric Topol @erictopol.bsky.social · 10/05/2025
Cells as living drugs is a big part of future medical approaches. There's been so much about engineering T cells (CAR-T) for treatment of cancer and autoimmune diseases. But engineering macrophages (CAR-M) is next up for blocking inflammation. www.nature.com/articles/s41...
nature.com
Targeting inflammation with chimeric antigen receptor macrophages using a signal switch - Nature Biomedical Engineering
Anti-TNF CAR macrophages show anti-inflammatory efficacy in both acute and chronic inflammatory disease mouse models.
218639
Hattie Chung @hattaca.bsky.social · 22/04/2025
A wonderful interview with our @yalecvrc.bsky.social colleague Martin Schwartz! Where science is like art: learning to define your taste in questions
0222
Reposted by Hattie Chung
David van Dijk @vandijklab.bsky.social · 18/04/2025
What if LLMs could “read” & “write” biology? 🤔 Introducing C2S‑Scale—a Yale and Google collab: we scaled LLMs (up to 27B!) to analyze & generate single‑cell data 🧬 ➡️ 📝 🔗 Blog: research.google/blog/teachin... 🔗 Preprint: biorxiv.org/content/10.1...
research.google
Teaching machines the language of biology: Scaling large language models for next-generation single-cell analysis
21810
Reposted by Hattie Chung
Paul Francois @pfrancois.bsky.social · 14/04/2025
As promised, a 'skeet' -orial on our paper published last week !
1289
Reposted by Hattie Chung
Albert Vilella, PhD. @albertvilella.bsky.social · 16/04/2025
Ranking of Variant Effect Predictor (VEP) in-silico tools from a recently published review, based on Relative performance with rate on MAVE data) 1. CPT-1 (Broad Institute) 2. AlphaMissense (Google DeepMind and cols.) 3. ESCOTT (Sorbonne/INSERM France)
0234
Hattie Chung @hattaca.bsky.social · 02/04/2025
🚨 Job alert! 🚨 The Chung Lab @ Yale seeks a motivated, creative postdoc to examine tissue remodeling in health and disease. We study ovarian aging and cardiovascular disease in human samples and animal models. Passionate about single-cell, spatial genomics, machine learning & therapeutics? Join us!
1107
Reposted by Hattie Chung
Leo Schärfen @leoschaerfen.bsky.social · 26/03/2025
Here is our paper showing in vivo folding of nascent RNA right after synthesis, published now in @cp-molcell.bsky.social! With @karlaneugebauer.bsky.social, @isaac-vock.bsky.social, @mattdsimon.bsky.social www.cell.com/molecular-ce...
cell.com
Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis
Schärfen et al. develop a method to measure the structure of nascent RNAs during their synthesis by RNA polymerases. Base pairing occurs rapidly in cells, revealing the strong regulatory potential of ...
45724
Reposted by Hattie Chung
Marc Veldhoen @marcveld.bsky.social · 17/11/2024
Myocarditis is a focus of many concerns. It is not a side effect of a particular vaccine but of the immune response following vaccination or infection! The latter, infection, is a much more serious event. A systemic review of over 400 million people; 1947 to 2021:
27718
Reposted by Hattie Chung
Waggoner Lab @labwaggoner.bsky.social · 19/03/2025
Growth of the maternal intestine during reproduction @cellcellpress.bsky.social @irenemiguel-aliaga.bsky.social www.cell.com/cell/fulltex...
0115
Reposted by Hattie Chung
Yale Cardiovascular Research Center @yalecvrc.bsky.social · 04/02/2025
Fantastic Cardiology Grand Rounds on advances in polygenic risk scores from field leader Pradeep Natarajan @pnatarajanmd.bsky.social, introduced by our own Hattie Chung @hattaca.bsky.social
0124
Reposted by Hattie Chung
Eric Topol @erictopol.bsky.social · 04/02/2025
New: The largest medical A.I. randomized controlled trial yet performed, enrolling >100,000 women undergoing mammography screening The use of AI led to 29% higher detection of cancer, no increase of false positives, and reduced workload compared with radiologists w/o AI thelancet.com/journals/lan...
thelancet.com
Screening performance and characteristics of breast cancer detected in the Mammography Screening with Artificial Intelligence trial (MASAI): a randomised, controlled, parallel-group, non-inferiority, ...
The findings suggest that AI contributes to the early detection of clinically relevant breast cancer and reduces screen-reading workload without increasing false positives.
381348346
Reposted by Hattie Chung
Waggoner Lab @labwaggoner.bsky.social · 14/01/2025
@ImmunityCP preview: Restimulation by macrophages exhausts T cells www.cell.com/immunity/ful... on www.cell.com/immunity/ful...
cell.com
Restimulation by macrophages exhausts T cells
Inhibiting T cell exhaustion is an attractive cancer immunotherapy strategy. In this issue of Immunity, Waibl Polania et al. examine the microenvironmental signals regulating terminal T cell exhaustio...
0104
Reposted by Hattie Chung
Anshul Kundaje @anshulkundaje.bsky.social · 07/01/2025
Very excited to announce that the single cell/nuc. RNA/ATAC/multi-ome resource from ENCODE4 is now officially public. This includes raw data, processed data, annotations and pseudobulk products. Covers many human & mouse tissues. 1/ www.encodeproject.org/single-cell/...
encodeproject.org
Single cell – ENCODEHomo sapiens clickable body map
628786
Reposted by Hattie Chung
Arjun Raj @arjunraj.bsky.social · 02/01/2025
Reposting my offer for 1-1 mentoring for anyone… email me and we'll find a time! Especially happy to talk with those from diverse backgrounds and non-traditional career trajectories.
17524
Reposted by Hattie Chung
Anshul Kundaje @anshulkundaje.bsky.social · 25/12/2024
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/
biorxiv.org
ChromBPNet: bias factorized, base-resolution deep learning models of chromatin accessibility reveal cis-regulatory sequence syntax, transcription factor footprints and regulatory variants
Despite extensive mapping of cis-regulatory elements (cREs) across cellular contexts with chromatin accessibility assays, the sequence syntax and genetic variants that regulate transcription factor (T...
723189
Reposted by Hattie Chung
NU Duncan Lab @nuduncanlab.bsky.social · 17/12/2024
Registration is now open for the 2025 Reproductive Aging Conference! May 4-7, 2025 in San Jose, California This is the only international meeting dedicated solely to mechanisms of reproductive aging. Register today: www.reproductiveagingconference.com @jennifergarrison.bsky.social
0118
Hattie Chung @hattaca.bsky.social · 18/12/2024
Excited to share our lab's first preprint: we used spatial transcriptomics to dissect how aging disrupts the cycling ovary! 🧵 This was an incredible team effort w/ @jennifergarrison.bsky.social #TammyLan @davidsebfischer.bsky.social #AlisonKochersberger #RuthRaichur #SophiaSzady
310934
Reposted by Hattie Chung
Hani Goodarzi @genophoria.bsky.social · 05/12/2024
@thejohnnyyu.bsky.social, @therealnima.bsky.social , Kevan Shokat, and I are excited to announce a historic achievement by our team at @vevotherapeutics.bsky.social: tinyurl.com/4rrvap3t
prnewswire.com
Vevo Therapeutics to Release World's Largest Atlas of Single-Cell Transcriptomic Data, Tahoe-100M, to Map How Drugs Impact Patient Cells and Accelerate Discovery of New Drugs
/PRNewswire/ -- Vevo Therapeutics, a biotechnology company using its Mosaic technology and next generation AI to uncover better drugs for more patients,...
44312
Hattie Chung @hattaca.bsky.social · 22/11/2024
Incredibly excited to see this brilliant work from @gheimberg.bsky.social #AvivRegev out this week. Years in the making, Graham thought of this before foundation models became cool :) a model for searching & finding the closest cell state, and experimentally validated !
050