Zechuan Shi

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A Bioinformatics Scientist with Knowledge in Neuroscience converts Coffee into Codes

I am a Bioinformatics Ph.D. candidate in Dr. Vivek Swarup’s lab at the University of California, Irvine. My thesis research focuses on leveraging statistical methods and computational tools to investigate Alzheimer’s disease, with the ultimate goal of discovering new therapeutic targets.

I graduated from Johns Hopkins University with a degree in Biotechnology in 2018. Following that, I worked as a research specialist in Dr. Lewis Chodosh’s lab at the University of Pennsylvania, where I contributed to developing treatments for recurrent breast cancer. There, I conducted hands-on drug efficacy experiments and applied statistical methods to evaluate drug effects across four preclinical trials. Additionally, my undergraduate research experience includes performing tissue culture, siRNA knockdown, flow cytometry, and other molecular approaches to advance our understanding in biomedical research.

news

Nov 07, 2024 I presented my research talk titled: “In Silico Module Perturbation Analysis unlocks a functional understanding of the dynamic gene networks in single-cell data” at American Society Human Genetics Annual Meeting 2024, Denvor CO
May 26, 2023 Successfully advanced in PhD; now officially a PhD Candidate! :sparkles: :smile: :brain:
Sep 16, 2022 ArchRtoSignac: an Object Conversion Package that I developed for ArchR to Signac.
Aug 02, 2022 I presented my research talk titled: “Single-nucleus open chromatin accessibility landscape of Pick’s and Alzheimer’s disease” at Alzheimer’s Association International Conference 2022, San Diego CA

selected publications

  1. bioRxiv
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    Single-nucleus multi-omics identifies shared and distinct pathways in Pick’s and Alzheimer’s disease
    Zechuan Shi, Sudeshna Das, Samuel Morabito, and 12 more authors
    bioRxiv, 2024
  2. Nat Neurosci
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    Derivation and transcriptional reprogramming of border-forming wound repair astrocytes after spinal cord injury or stroke in mice
    Timothy M. O’Shea, Yan Ao, Shinong Wang, and 6 more authors
    Nature Neuroscience, 2024
  3. bioRxiv
    Spatial and single-nucleus transcriptomic analysis of genetic and sporadic forms of Alzheimer’s Disease
    Emily Miyoshi*, Samuel Morabito*, Caden M. Henningfield, and 21 more authors
    bioRxiv, 2023