Publications

Selected publications from the Qian Lab.

Spatial transcriptomics reveals human cortical layer and area specification

Qian X#*, Coleman K*, Jiang S*, Kriz AJ, Marciano JH, Luo C, Cai C, Manam MD, Caglayan E, Lai A, Exposito-Alonso D, Otani A, Ghosh U, Shao DD, Andersen RE, Neil JE, Johnson R, LeFevre A, Hecht JL, Micali N, Sestan N, Rakic P, Miller MB, Sun L, Stringer C, Li M#, Walsh CA#

Nature 2025 Read Article

Loss of non-motor kinesin KIF26A causes congenital brain malformations via dysregulated neuronal migration and axonal growth as well as apoptosis

Qian X*, DeGennaro EM*, Talukdar M, Akula SK, Lai A, Shao DD, Gonzalez D, Marciano JH, Smith RS, Hylton NK, Yang E, Bazan JF, Barrett L, Yeh RC, Hill RS, Beck SG, Otani A, Angad J, Mitani T, Posey JE, Pehlivan D, Calame D, Aydin H, Yesilbas O, Parks KC, Argilli E, England E, Im K, Taranath A, Scott HS, Barnett CP, Arts P, Sherr EH, Lupski JR, Walsh CA

Dev Cell 2022 Read Article

Sliced Human Cortical Organoids for Modeling Distinct Cortical Layer Formation

Qian X, Su Y, Adam CD, Deutschmann AU, Pather SR, Goldberg EM, Su K, Li S, Lu L, Jacob F, Nguyen PTT, Huh S, Hoke A, Swinford-Jackson SE, Wen Z, Gu X, Pierce RC, Wu H, Briand LA, Chen HI, Wolf JA, Song H, Ming GL

Cell Stem Cell 2020 Read Article

Generation of human brain region-specific organoids using a miniaturized spinning bioreactor

Qian X*, Jacob F*, Song MM, Nguyen HN, Song H, Ming GL

Nature Protocols 2018 Read Article

Brain-Region-Specific Organoids Using Mini-bioreactors for Modeling ZIKV Exposure

Qian X*, Nguyen HN*, Song MM, Hadiono C, Ogden SC, Hammack C, Yao B, Hamersky GR, Jacob F, Zhong C, Yoon KJ, Jeang W, Lin L, Li Y, Thakor J, Berg DA, Zhang C, Kang E, Chickering M, Nauen D, Ho CY, Wen Z, Christian KM, Shi PY, Maher BJ, Wu H, Jin P, Tang H, Song H, Ming GL

Cell 2016 Read Article

All Publications

Transcriptomic Convergence and the Female Protective Effect in Autism

Andersen RE, Talukdar M, Sakamoto T, Song JHT, Qian X, Lee S, Delgado RN, Zhao S, Eichfeld G, Harms J, Walsh CA

bioRxiv [Preprint] Jan 2025 Link

Resolving tissue complexity by multimodal spatial omics modeling with MISO

Coleman K, Schroeder A, Loth M, Zhang D, Park JH, Sung JY, Blank N, Cowan AJ, Qian X, Chen J, Jiang J, Yan H, Samarah LZ, Clemenceau JR, Jang I, Kim M, Barnfather I, Rabinowitz JD, Deng Y, Lee EB, Lazar A, Gao J, Furth EE, Hwang TH, Wang L, Thaiss CA, Hu J, Li M

Nat Methods Jan 2025 Link

Perinatal Elimination of Genetically Aberrant Neurons from Human Cerebral Cortex

Shao DD, Zhao Y, Ghosh U, Brew J, Zhao S, Qian X, Tran J, Taketomi T, Tsuruta F, Park PJ, Walsh CA

bioRxiv [Preprint] Oct 2024 Link

Rare variation in non-coding regions with evolutionary signatures contributes to autism spectrum disorder risk

Shin T, Song JHT, Kosicki M, Kenny C, Beck SG, Kelley L, Antony I, Qian X, Bonacina J, Papandile F, Gonzalez D, Scotellaro J, Bushinsky EM, Andersen RE, Maury E, Pennacchio LA, Doan RN, Walsh CA

Cell Genom Jul 2024 Link

TMEM161B regulates cerebral cortical gyration, Sonic Hedgehog signaling, and ciliary structure in the developing central nervous system

Akula SK, Marciano JH, Lim Y, Exposito-Alonso D, Hylton NK, Hwang GH, Neil JE, Dominado N, Bunton-Stasyshyn RK, Song JHT, Talukdar M, Schmid A, Teboul L, Mo A, Shin T, Finander B, Beck SG, Yeh RC, Otani A, Qian X, DeGennaro EM, Alkuraya FS, Maddirevula S, Cascino GD, Giannini C, Undiagnosed Diseases N, Burrage LC, Rosenfield JA, Ketkar S, Clark GD, Bacino C, Lewis RA, Segal RA, Bazan JF, Smith KA, Golden JA, Cho G, Walsh CA

Proc Natl Acad Sci U S A Jan 2023 Link

Structural and functional integration of human forebrain organoids with the injured adult rat visual system

Jgamadze D, Lim JT, Zhang Z, Harary PM, Germi J, Mensah-Brown K, Adam CD, Mirzakhalili E, Singh S, Gu JB, Blue R, Dedhia M, Fu M, Jacob F, Qian X, Gagnon K, Sergison M, Fruchet O, Rahaman I, Wang H, Xu F, Xiao R, Contreras D, Wolf JA, Song H, Ming GL, Chen H-CI

Cell Stem Cell Jan 2023 Link

Intrinsic antiviral immunity of barrier cells revealed by an iPSC-derived blood-brain barrier cellular model

Cheng Y, Medina A, Yao Z, Basu M, Natekar JP, Lang J, Sanchez E, Nkembo MB, Xu C, Qian X, Nguyen PTT, Wen Z, Song H, Ming GL, Kumar M, Brinton MA, Li MMH, Tang H

Cell Rep Jun 2022 Link

Rewiring of human neurodevelopmental gene regulatory programs by human accelerated regions

Girskis KM, Stergachis AB, DeGennaro EM, Doan RN, Qian X, Johnson MB, Wang PP, Sejourne GM, Nagy MA, Pollina EA, Sousa AMM, Shin T, Kenny CJ, Scotellaro JL, Debo BM, Gonzalez DM, Rento LM, Yeh RC, Song JHT, Beaudin M, Fan J, Kharchenko PV, Sestan N, Greenberg ME, Walsh CA

Neuron Oct 2021 Link

A Patient-Derived Glioblastoma Organoid Model and Biobank Recapitulates Inter- and Intra-tumoral Heterogeneity

Jacob F, Salinas RD, Zhang DY, Nguyen PTT, Schnoll JG, Wong SZH, Thokala R, Sheikh S, Saxena D, Prokop S, Liu DA, Qian X, Petrov D, Lucas T, Chen HI, Dorsey JF, Christian KM, Binder ZA, Nasrallah M, Brem S, O'Rourke DM, Ming GL, Song H

Cell Jan 2020 Link

Brain organoids: advances, applications and challenges

Qian X, Song H, Ming GL

Development Apr 2019 Link

DISC1 Regulates Neurogenesis via Modulating Kinetochore Attachment of Ndel1/Nde1 during Mitosis

Ye F, Kang E, Yu C, Qian X, Jacob F, Yu C, Mao M, Poon RYC, Kim J, Song H, Ming GL, Zhang M

Neuron Dec 2017 Link

Zika-Virus-Encoded NS2A Disrupts Mammalian Cortical Neurogenesis by Degrading Adherens Junction Proteins

Yoon KJ, Song G, Qian X, Pan J, Xu D, Rho HS, Kim NS, Habela C, Zheng L, Jacob F, Zhang F, Lee EM, Huang WK, Ringeling FR, Vissers C, Li C, Yuan L, Kang K, Kim S, Yeo J, Cheng Y, Liu S, Wen Z, Qin CF, Wu Q, Christian KM, Tang H, Jin P, Xu Z, Qian J, Zhu H, Song H, Ming GL

Cell Stem Cell Sep 2017 Link

Using brain organoids to understand Zika virus-induced microcephaly

Qian X, Nguyen HN, Jacob F, Song H, Ming GL

Development Mar 2017 Link

Molecular signatures associated with ZIKV exposure in human cortical neural progenitors

Zhang F, Hammack C, Ogden SC, Cheng Y, Lee EM, Wen Z, Qian X, Nguyen HN, Li Y, Yao B, Xu M, Xu T, Chen L, Wang Z, Feng H, Huang WK, Yoon KJ, Shan C, Huang L, Qin Z, Christian KM, Shi PY, Xu M, Xia M, Zheng W, Wu H, Song H, Tang H, Ming GL, Jin P

Nucleic Acids Res Oct 2016 Link

Identification of small-molecule inhibitors of Zika virus infection and induced neural cell death via a drug repurposing screen

Xu M, Lee EM, Wen Z, Cheng Y, Huang WK, Qian X, Tcw J, Kouznetsova J, Ogden SC, Hammack C, Jacob F, Nguyen HN, Itkin M, Hanna C, Shinn P, Allen C, Michael SG, Simeonov A, Huang W, Christian KM, Goate A, Brennand KJ, Huang R, Xia M, Ming GL, Zheng W, Song H, Tang H

Nat Med Oct 2016 Link