Joy Pai
@joyp_ai
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@stanfordimmuno PhD Student | Satpathy Lab
Stanford, CA
Joined July 2021
Out on @biorxivpreprint, I'm excited to share our latest deep dive into the world of mitochondrial genetics using single-cell genomics. Grateful to have worked with @LeifLudwig, @Satpathology, and many others. https://t.co/45yRkOQFPP Thread here: 1/n
biorxiv.org
Somatic variation contributes to biological heterogeneity by modulating cellular proclivity to differentiate, expand, adapt, or die. While large-scale sequencing efforts have revealed the foundatio...
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We are excited to share this T cell dataset with regional, clonal, and longitudinal resolution, and hope that it is useful to the community!
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3. Lastly, by tracing clones longitudinally in the peripheral blood, we observed that, while tumor-specific T cell clones are less frequently found in the periphery than effector clones, tumor-specific T cells can persist long-term after the initiation of checkpoint blockade.
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2. By tracing clones between the tumor and lymph node, we identified a clonal relationship between lymph node progenitor exhausted T cells and their exhausted counterparts in the tumor.
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Some highlights: 1. By tracing T cell clones across multiple tissue regions within the same patient, we found that T cells undergo progressive exhaustion with proximity to viable tumor.
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Excited to share that our work on regional T cell clonal responses to immune checkpoint blockade is out now! Very grateful to @AndrewChowMDPhD, Matthew Hellmann, @Satpathology, and all other co-authors for this wonderful collaboration. Check it out here! https://t.co/SJQmfG8iFn
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Out today in @NatureProtocols, our detailed writeup on the mitochondrial scATAC-seq assay, spanning everything from the molecular biology to computational analyses. Check out the paper here: https://t.co/b1Jx57UKAe and some highlights in this thread: (1/11)
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Happy to share that our work is online @MolecularCell. Our single-cell chromatin atlas of macrophage polarization reveals cyclical macrophage plasticity states in cell cycle. Great collaboration with Julia Belk, @HowardYChang & @Satpathology.
cell.com
Daniel etĀ al. report a single-cell chromatin atlas of macrophage polarization and discover cyclical macrophage plasticity states in cell cycle. They show that macrophage polarization is a cell...
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Excited to share the latest preprint with @MikeAngeloLab! While imaging studies often focus on cell objects, images capture significant info outside of cells. Enter Pixie, a pipeline for the quantitative annotation of both pixel and cell level featuresš§µ https://t.co/ZEHCNcsui5
biorxiv.org
While technologies for multiplexed imaging have provided an unprecedented understanding of tissue composition in health and disease, interpreting this data remains a significant computational...
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Our lab thinks a lot about the epigenetic regulation of T cell exhaustion. Happy to have a chance to discuss important prior work that has influenced our thinking as well as our own speculations in @NatImmunol. Led by Julia Belk and @BenceDaniel2
https://t.co/1eReDHT0rC
nature.com
Nature Immunology - Satpathy and colleagues review the epigenetic underpinnings that result in T cell exhaustion.
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Our work on CD4 T cell responses to persistent antigen is out now! Grateful to Yu Xia @SandorDanielne @BenceDaniel2 @Satpathology and @FW14B_Red5 for the great collaboration.
Now our new paper is online. https://t.co/ea44P5CV48 Great collaborative work #2 (many more to follow) with Ansu Satpathy @Satpathology.
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Check out this amazing work on the epigenetic programming of TRMs, led by my lab-mate and friend @buquicchioli!
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Excited to share our preprint on clonal T cell differentiation trajectories of T cell exhaustion. Great collaboration with @KatieEYost @HowardYChang @FW14B_Red5 @Satpathology and others @StanfordMed.
biorxiv.org
T cells activated by chronic antigen exposure in the setting of viral infections or cancer can adopt an exhausted T cell (Tex) state, characterized by reduced effector function and proliferative...
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Are you or someone you know applying to @stanfordimmuno's PhD program this fall? Join SIRPA to get Statement of Purpose feedback and a 1-1 session with a current Stanford Immunology PhD student! First-come first-served until November 5th.
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New preprint!!! Here we show how transient activation of dendritic cells diversifies T cell fates. A thread in english y tambiƩn en espaƱol!
biorxiv.org
The precise timing of T cell priming during infection remains unclear. Here, we mapped the cellular dynamics of all immune lineages during acute infection with Listeria monocytogenes ( Lm ). We...
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Very excited to share our work on regional T cell clonal dynamics in lung cancer! Honored to be able to work with and learn from @AndrewChowMDPhD, Matthew Hellmann, @Satpathology, @charlesrudin, @merghout, @wolchokj, and many more.
Regional and clonal T cell dynamics at single cell resolution in immune checkpoint blockade https://t.co/If3E2B041E
#biorxiv_immuno
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Happy to share recent work from @SandorDanielne @joyp_ai @BenceDaniel2 in collaboration with the Egawa lab @FW14B_Red5 identifying a TCF1+ CD4 progenitor that maintains long term responses to chronic antigen
BCL6-dependent TCF-1+ progenitor cells maintain effector and helper CD4 T cell responses to persistent antigen https://t.co/BRBK15b3AZ
#biorxiv_immuno
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Excited to share our review of TCR sequencing technologies out now in @naturemethods! https://t.co/GrfNo5s0vK
nature.com
Nature Methods - This Review discusses methodological advances for high-throughput analysis of the TCR repertoire at bulk and single-cell resolution.
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