Chengxiang Qiu

Assistant Professor, Molecular and Systems Biology

Dr. Qiu's research focuses on single-cell genomics, human disease genetics, and mammalian development, leveraging computational methods to investigate how cell differentiation and lineage commitment are orchestrated through gene expression, with the goal of uncovering the molecular and cellular mechanisms underlying normal human development and developmental disorders, particularly neurodevelopmental disorders.

Personal Website

Contact

Chengxiang.Qiu@dartmouth.edu
Vail 604
HB 7400

Selected Publications

  • Qiu C*,#, Martin BK*, Welsh IC*, Daza RM, Le TM, Huang X, Nichols EK, Taylor ML, Fulton O, O'Day DR, Gomes AR, Ilcisin S, Srivatsan S, Deng X, Disteche CM, Noble WS, Hamazaki N, Moens CB, Kimelman D, Cao J, Schier AF, Spielmann M, Murray SA, Trapnell C, Shendure J#. A single-cell time-lapse of mouse prenatal development from gastrula to birth. Nature. 2024;626(8001):1084–93.

    Huang X*, Henck J*, Qiu C*, Sreenivasan VKA, Balachandran S, Amarie OV, Hrabě de Angelis M, Behncke RY, Chan WL, Despang A, Dickel DE, Haag N, Hägerling R, Hansmeier N, Hennig F, Marshall C, Rajderkar S, Ringel A, Robson M, Saunders L, SR, Ulferts S, Wittler L, Zhu Y, Kalscheuer VM, Ibrahim D, Kurth I, Kornak U, Beier DR, Visel A, Pennacchio LA, Trapnell C, Cao J#, Shendure J#, Spielmann M#. Single-cell, whole-embryo phenotyping of mammalian developmental disorders. Nature. 2023;623(7988):772–81.

    Qiu C#, Cao J, Martin BK, Li T, Welsh IC, Srivatsan S, Huang X, Calderon D, Noble WS, Disteche CM, Murray SA, Spielmann M, Moens CB, Trapnell C, Shendure J#. Systematic reconstruction of cellular trajectories across mouse embryogenesis. Nat Genet. 2022;54(3):328–41.

    Qiu C*, Huang S*, Park J, Park Y, Ko YA, Seasock MJ, Bryer JS, Xu XX, Song WC, Palmer M, Hill J, Guarnieri P, Hawkins J, Boustany-Kari CM, Pullen SS, Brown CD, Susztak K#. Renal compartment--specific genetic variation analyses identify new pathways in chronic kidney disease. Nat Med. 2018;24(11):1721–31.

    Liu Z*#, Qiu C*, Kubo C, Xu S, Daza R, Nichols E, Yang W, Vo A, O'Neill M, Lee C, Shendure J#, Hamazaki N#. Dual-patterned pluripotent stem cells self-organize into a human embryo model with extended anterior-posterior patterning. bioRxiv. 2025.

    Regalado SG*, Qiu C*, Kottapalli S, Martin BK, Chen W, Liao H, Kim H, Li X, Lalanne J, Hamazaki N, Domcke S, Choi J#, Shendure J#. Lineage recording in monoclonal gastruloids reveals heritable modes of early development. bioRxiv. 2025.

    Regalado SG*, Qiu C*, Lalanne J, Martin BK, Duran M, Trapnell C, Keith A, Domcke S, Shendure J. Barcoded monoclonal embryoids are a potential solution to confounding bottlenecks in mosaic organoid screens. bioRxiv. 2025.