Zihan Xu

I'm thrilled to share our new #bioRxiv preprint from ⁦@junyue_cao⁩ lab at ⁦@RockefellerUniv⁩! We present PerturbFate, a high-throughput single-cell CRISPR platform profiling nascent/pre-existing RNA, steady-state RNA & chromatin accessibility. biorxiv.org/content/10.110…

Now online! SPIDR enables multiplexed mapping of RNA-protein interactions and uncovers a mechanism for selective translational suppression upon cell stress dlvr.it/TM4dlf

Most disease-associated GWAS signals fall in the non-coding genome🧬 Although assumed to influence expression, pinpointing the causal gene isn't easy. Two ways include: 1⃣eQTL mapping in relevant tissues/cells 2⃣in vitro CRISPRi screens This preprint compares the two👇

Optical pooled screening is enhanced by amplification of barcodes before in situ sequencing go.nature.com/3ZVzqOi rdcu.be/exfh0

CRISPR just scored its biggest win yet against Huntington's. The secret? A delivery system called RIDE that sneaks into neurons, makes its edit, then vanishes in 72 hours. Here's what happened 🧵👇

Barcoded viral tracing identifies immunosuppressive astrocyte–glioma interactions @QuintanaLabHMS @Nature @CamiloFaustAkl nature.com/articles/s4158…

Nerve-to-cancer transfer of mitochondria during cancer metastasis: nature.com/articles/s4158…

Thrilled to share the latest work from my PhD in the @BizarMd group! This has been a dream MD/PhD project, culminating in data that has already enabled access to precision therapy for a patient. Tweetorial below:

1/14 On behalf of the amazing team in @JswLab, we’re excited to share PEtracer (biorxiv.org/content/10.110…) 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…

Defining “what is good” is central to both AI and Science. Despite massive efforts towards building the Virtual Cell, our recent @NatureBiotech article reflects on whether current gold standards (i.e., evaluation metrics) still hold up. nature.com/articles/s4158…

“Lineage recording in monoclonal gastruloids reveals heritable modes of early development” Great work ⁦@JShendure⁩ ⁦@_Choi_Junhong⁩ ⁦@SRegalad0⁩ !!!! biorxiv.org/content/10.110…

🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktar_lab , @OliverStegle and @MoritzMall groups. Preprint at end🧵👇

A triumph of perseverance from twitterless Tom Weber, Christine Biben and the team, our in vivo barcoding "LoxCode mouse" used to resolve epiblast fate to fetal organs is finally published in @CellCellPress and available to import through @jacksonlab sciencedirect.com/science/articl…

Huge congrats to @ziyu__lu from the @junyue_cao lab at @RockefellerUniv on publishing the largest organismal single-cell chromatin accessibility landscape during mouse aging! This high-quality reference will serve as a foundational resource for aging research 🫡👏

Three-dimensional genome landscape of primary human cancers nature.com/articles/s4158… #journals #feedly

How does heart failure rewire gene regulation? 🔍 Excited to share our single-cell, multimodal epigenomic resource on human heart failure🫀: doi.org/10.1101/2025.0….

Huge congrats 🎈 🍾

Thank you so much Jun 😊