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Zukai Liu

@zukailiu.bsky.social
56 followers 74 following 6 posts

Washington Research Foundation fellow in Shendure and Hamazaki labs at UW. PhD from Robson and Cheng labs at JAX. Gene editing and Stem cell biology.

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Reposted by Zukai Liu
Jonas Koeppel @jonaskoeppel.bsky.social · 04/06/2026
1/n What fraction of the human genome is essential for cells? Excited to share our preprint that explores this question by combining an unusual CRISPR system, phage promoters, and thousands of deletion launchpads. @sudpinglay.bsky.social @jshendure.bsky.social www.biorxiv.org/content/10.6...
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Reposted by Zukai Liu
Jay Shendure @jshendure.bsky.social · 31/07/2026
Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote 1/n
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Junhong Choi @choijunhong.bsky.social · 11/08/2026
Excited to share the first preprint from our lab! We combined a DNA Typewriter lineage recorder with clone-resolved founder profiling to find what makes metastatic potential heritable in lung cancer xenografts. 1/13 www.biorxiv.org/content/10.6...
biorxiv.org
Time-resolved lineage recording reveals a pre-existing, heritable cell state underlying metastatic potential
Metastasis causes most cancer deaths, yet no recurrent mutation specifically drives it, raising the possibility that metastatic potential is a non-genetic yet heritable cell state. Classic experiments...
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Reposted by Zukai Liu
William DeWitt @wsdewitt.github.io · 27/06/2026
Spectacular preprint led by @sydsat.bsky.social in @ohnolog.bsky.social lab, @uwgenome.bsky.social. Neutrophils precede gastrulation in killifish and rapidly patrol the yolk. (1/2)
doi.org
Early immune cell development precedes gastrulation in annual killifish
During embryogenesis, cell types arise in a predictable order because developmental regulators act sequentially. But how evolutionary changes in morphogenesis reshape the signaling environments that a...
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Reposted by Zukai Liu
Saori Sakaue @saorisakaue.bsky.social · 28/04/2026
New preprint! 📣We performed the largest multi-ancestry GWAS of rheumatoid arthritis (RA), the most common autoimmune disease, by analyzing the VA Million Veteran Program (MVP) with international RA cohorts.
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Reposted by Zukai Liu
Riddhiman Garge @riddhiman.bsky.social · 25/04/2026
1/ Thrilled to share our latest: an exciting collaboration across the @jshendure.bsky.social, @leastarita.bsky.social, @nobuhamazaki.bsky.social and @dschweppe.bsky.social labs! 🧵 below- #SystemsBiology #SCBEM #MultiOmics #Gastruloids www.nature.com/articles/s41...
nature.com
The proteomic landscape and temporal dynamics of human and mouse gastruloid development - Nature Cell Biology
Garge et al. use experimentally matched mass spectrometry and RNA-sequencing to quantify proteins, phosphosites and transcripts across four key stages of human and mouse gastruloid development.
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Reposted by Zukai Liu
Diego Calderon @diegoisworking.bsky.social · 21/04/2026
We’re hiring a Junior Specialist in the Calderon Lab. Great fit for someone thinking about grad school who wants hands-on experience in functional genomics (MPRA, single-cell), contribute to ongoing projects, and grow into more independent work over time. Apply by 4/24: aprecruit.ucsf.edu/JPF06010
aprecruit.ucsf.edu
Junior Specialist- Calderon Lab
University of California, San Francisco is hiring. Apply now!
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Reposted by Zukai Liu
Naomi Moris @nmoris.bsky.social · 16/12/2025
Lovely little pre-Christmas present to see this out @natcellbio.nature.com! Some 🔥 new results in here since the biorvix incl (1) a new RARE-GFP reporter ✳️🙌, (2) additional NMP quantification 🔢, (3) no neural tube patterning on RA inhibition 🙅 etc. Enjoy! 😍 www.nature.com/articles/s41...
nature.com
Modelling co-development between the somites and neural tube in human trunk-like structures - Nature Cell Biology
Makwana, Tilley et al. generate human stem cell-based trunk-like structures approximating Carnegie stage 13–14 of development. They use them to model and study the development of the thoracic and lumbar trunk.
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Reposted by Zukai Liu
Nature Biotechnology @natbiotech.nature.com · 11/11/2025
A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - @jshendure.bsky.social @troymcdiarmid.bsky.social @uwgenome.bsky.social go.nature.com/49eTPCu
go.nature.com
A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - Nature Biotechnology
Prime editing in mammalian cells benefits from a comprehensive list of genetic parts.
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Reposted by Zukai Liu
Troy McDiarmid @troymcdiarmid.bsky.social · 05/11/2025
Stoked to share our latest work entitled: “Large-scale discovery of neural enhancers for cis-regulation therapies” shorturl.at/H3Qww This is an enormous team effort that I had the honour of spearheading with Nick Page and Florence Chardon. Bluetorial below.
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Reposted by Zukai Liu
cxqiu.bsky.social @cxqiu.bsky.social · 04/11/2025
Thrilled to share I’ve started my lab at Dartmouth’s Geisel School of Medicine! We focus on mapping cellular trajectories & TF networks in development and Mendelian disorders, exploring new therapies. Join us—postdocs, grads, and scientists welcome! sites.dartmouth.edu/qiulab/
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Jay Shendure @jshendure.bsky.social · 14/10/2025
Super excited about first Shendure/Baker Lab collaboration & preprint on a multiplex sequencing-based strategy for screening de novo proteome editors in mammalian cells. Kudos to the brilliant Chase Suiter (not here) & @greenahn.bsky.social on the work! Preprint here: www.biorxiv.org/content/10.1...
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Reposted by Zukai Liu
Cedric Feschotte @cedricfeschotte.bsky.social · 30/04/2025
💥🥳 At long last, our latest paper is out! Gag proteins of endogenous retroviruses are required for zebrafish development www.pnas.org/doi/10.1073/... Led heroically by Sylvia Chang & @jonowells.bsky.social A study which has changed the way I think of #transposons! No less! 🧵 1/n
pnas.org
Gag proteins encoded by endogenous retroviruses are required for zebrafish development | PNAS
Transposable elements (TEs) make up the bulk of eukaryotic genomes and examples abound of TE-derived sequences repurposed for organismal function. ...
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Zukai Liu @zukailiu.bsky.social · 15/04/2025
1/n Wondering how transposable elements shape the evolution of cell lineage specification in embryogenesis? Please check this out! We found that human specific LTR2B can be bound by HAND1, transcribed and spliced into neighboring genes, most of which are human specific ExMC marker genes.
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Reposted by Zukai Liu
Paul Robson @paulrobson.bsky.social · 12/04/2025
Great work from @zukailiu.bsky.social defining the first mesenchymal cells in human development as trophoblast-derived, and adding to the examples of evolutionary co-option of viral sequences contributing to our uniquely ape/human features. #hiPSC #MorPhiC #EvoDevo doi.org/10.1016/j.ce...
doi.org
Redirecting
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Sendoel Lab @sendoellab.bsky.social · 19/03/2025
Our genome encodes > 7000 microproteins that have been previously ignored in genome annotations. How do these microproteins impact tissue function? Here, we use an in vivo single-cell CRISPR screen to systematically explore microprotein function in the mouse epidermis. 1/9
biorxiv.org
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Pauli Group (posts by Andi Pauli) @pauligroup.bsky.social · 03/02/2025
I can highly recommend the YEN 2025 meeting for students and postdocs working on 'anything embryo' - a fantastic meeting organized by students and postdocs for you!
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Reposted by Zukai Liu
jblalanne.bsky.social @jblalanne.bsky.social · 17/01/2025
Brief PSA for the functional genomics community: if you are profiling complex libraries with >1 internal components (e.g., enhancer+barcodes in MPRAs) delivered via AAVs, be aware that there might be substantial unlinking within your libraries if you packaged as a pool! doi.org/10.1101/2025...
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Zukai Liu @zukailiu.bsky.social · 08/01/2025
Wonderful work! Congrats, Ryan!
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