Julia Joung
@JuliaJoung
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Postdoc in the lab of Jonathan Weissman @WhiteheadInst. PhD Feng Zhang lab | @MITdeptofBE | @broadinstitute
Boston, MA
Joined May 2018
Thrilled to share my primary PhD work: a Transcription Factor Atlas for understanding gene regulation and cell engineering @CellCellPress. We created a comprehensive TF ORF library and applied it to profile resulting expression changes. A thread 1/X
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Our GDE preprint now accepted to #NeurIPS2025! 🎉 We show how to lift any encoder-decoder to learn representations of distributions not just datapoints—unlocking multiscale modeling across domains: from cell populations to DNA methylation to viral evolution. Try GDEs for a
New lab preprint! 🚀 Modeling complex data distributions is tough. We designed GDEs, a new framework that tackles this head-on! GDEs generalize across text, images & MANY bio apps (think virtual cells, spatial bio, viral genome tracking). Thread 👇
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I'm thrilled to share our work from @JswLab ( https://t.co/CMzQznSXPN). We developed LOCL-TL, an optogenetic approach for monitoring localized translation in mammalian cells. LOCL-TL revealed two mechanistically distinct strategies for mitochondrially localized translation.
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Hi everybody! I am super excited to share the work done during my PhD published in @nature today! We describe a new mechanism of self- vs. non-self RNA discrimination by showing how N-glycans shield glycoRNAs from stimulating endosomal RNA sensors
nature.com
Nature - N-glycans on glycoRNAs prevent innate immune sensing of endogenous small RNAs, and the natural mechanism they use demonstrates how glycoRNAs exist on the cell surface and in the endosomal...
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Excited to announce that this work is now live as a first release article @ScienceMagazine So grateful for this fantatic team and to see this work in wild!
science.org
Charting the spatiotemporal dynamics of cell fate determination in development and disease is a long-standing objective in biology. Here, we present the design, development, and extensive validation...
1/14 On behalf of the amazing team in @JswLab, we’re excited to share PEtracer ( https://t.co/QTyBahCCLS) a prime editing-based evolving lineage recorder compatible with both scRNA-seq and high-resolution imaging readouts in intact tissue. By applying PEtracer in a syngeneic mouse
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SPIDR enables multiplexed mapping of RNA-protein interactions and uncovers a mechanism for selective translational suppression upon cell stress: Cell
cell.com
SPIDR, a massively multiplexed method that simultaneously maps dozens of RNA-binding proteins to their RNA targets at single-nucleotide resolution, uncovers new RNA-protein interactions and provides...
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Why do some genetic mutations devastate specific tissues while sparing others? We explore this question in GGC repeat disorders, revealing a mechanism linking protein aggregation to tRNA splicing failure in the brain. 🧵 on our new paper in Science: 🔗
science.org
Aggregation-prone polyglycine-containing proteins produced from expanded GGC repeats are implicated in an emerging family of neurodegenerative disorders. In this study, we showed that polyglycine...
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Just published in Nature (June 2025), Andersen et al. (@EAChiocca, Reardon, @QuintanaLabHMS) developed a novel viral barcode interaction-tracing (RABID-seq) platform, uncovering previously unknown immunosuppressive interactions between astrocytes and glioblastoma (GBM) cells.
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Repeat-element RNAs integrate a neuronal growth circuit: Cell
cell.com
SINEs of recovery: A subset of small RNAs encoded by repetitive genomic elements are induced by nerve lesion to regulate protein synthesis and enhance axonal growth.
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PAPER ALERT! Excited to share my PhD work in the lab of @larsplus @CRGenomica. We screened minimalistic synthetic enhancers throughout myeloid differentiation. We uncovered widespread dual activator-repressor functions for individual TFs and TF pairs https://t.co/D3XlH99RH7 (1/n)
cell.com
Screen of minimalistic enhancers in blood progenitor cells demonstrates widespread dual activator-repressor function of transcription factors (TFs) and enables the model-guided design of cell-state...
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Stem cell therapy for Parkinson’s disease has entered a new era. Two @Nature studies demonstrate that pluripotent stem cell–derived dopamine neurons can survive, restore function, and potentially change the treatment paradigm for this neurodegenerative disease.
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This is the most important paper in the circadian field in over a decade. A completely new clock component that is evolutionarily conserved. @Eric_E_Zhang @susanksgolden @ @SRBR_Outreach
https://t.co/Gh8fUhDeP7
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What protects individuals from developing blood cancers? Thrilled to share my work in @bloodgenes lab, describing inherited resilience protecting blood stem cells from clonal hematopoiesis by modifying RNA regulation. 🧵👇(1/n) https://t.co/PNaCHa4D4k
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The massive changes in US research brought about by the new administration of President Donald Trump are causing many scientists in the country to rethink their lives and careers https://t.co/cWGoHyeewI
nature.com
Nature - More than 1,600 readers answered our poll; many said they were looking for jobs in Europe and Canada.
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The latest from @GladstoneInst of Cardiovascular Research and @ucsf: Isha Jain's lab, with an outstanding discovery of a small molecule that mimics hypoxia, to treat neurodegenerative diseases. The amazing Sylar Blume, RA in Isha's lab, is first author!
cell.com
A small molecule that increases oxygen-hemoglobin affinity was shown to prevent and reverse pathology in a mouse model of mitochondrial disease, thereby enabling a practical form of hypoxia therapy.
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Thrilled to be launching @terrainbiosci today! Revolutionizing RNA medicines with our AI-powered design & manufacturing platform Helping biotechs get better mRNA candidates to patients, faster 🧬 #biotech #RNAmedicine w/ @jgooten @pdhsu Chetan and many others (awesome team!)
Terrain Biosciences, backed by high-profile players in biotech, will design and supply RNA molecules for new therapies.
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It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS, indeterminate dendritic cell histiocytosis
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Big #RegenerativeMedicine advance! New study demonstrates the use of iPSC-heart muscle to treat a patient with heart failure. The patches successfully engrafted, contributing to heart repair. Patient survived 3 months before receiving a heart transplant
nature.com
Nature - Epicardial engineered heart muscle allografts from induced pluripotent stem cell-derived cardiomyocytes can safely and effectively remuscularize chronically failing hearts in rhesus...
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Super excited to share our new study from the @JD_Buenrostro Lab in @Nature! We developed a computational method for tracking transcription factor and nucleosome binding using single-cell ATAC-seq and deep learning. Paper:
nature.com
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...
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Could one envision a synthetic receptor technology that is fully programmable, able to detect diverse extracellular antigens – both soluble and cell-attached – and convert that recognition into a wide range of intracellular responses, from transgene expression and real-time
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