Yijing Su Lab @ UPENN

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*. equal contribution; #. Correspondence

Selected Publications

  • Yi Zhou*, Yijing Su*, Qian Yang*, Jiaqi Li, Yan Hong, Taosha Gao, Yanqing Zhong, Xueting Ma, Mengmeng Jin, Xinglan Liu, Nini Yuan, Benjamin C Kennedy, Lizhou Wang, Longying Yan, Angela N Viaene, Ingo Helbig, Sudha K Kessler, Joel E Kleinman, Thomas M Hyde, David W Nauen, Cirong Liu, Zhen Liu, Zhiming Shen, Chao Li, Shengjin Xu, Jie He, Daniel R Weinberger, Guo-li Ming, Hongjun Song. Cross-species analysis of adult hippocampal neurogenesis reveals human-specific gene expression but convergent biological processes. Nat Neuroscience. 2025
  • Taosha Gao, Yuki Fujita, Yixing Chen, Zetian Wang, Yisha Lu, Dongchang Huang, Jingting Shen, Longying Yan, Shiyi Zhang, Yuxuan Wang, Peiming Li, Xiang Fang, Erik Hrabovszky, Chun Xu, Yijing Su#, Yang Li#, Lei Zhang#, Yi Zhou#. From seq-ing to modeling: towards a molecular understanding of special properties of immature neurons in the human hippocampus. Life Medicine. 2025
  • Dunn J*, Moore C*, Kim NK*, Gao T, Cheng Z, Jin P, Ming GL, Qian J#, Su Y#, Song H#, Zhu H#. Transcription Factor-Wide Association Studies (TF-WAS) to Identify Functional SNPs in Alzheimer’s Disease. Journal of Neuroscience. 2024 Dec 2: 2024 Dec 2:e1800242024
  • Su Y*#, Zhou Y*, Bennett ML, Li S, Carceles-Cordon M, Lu L, Huh S, Jimenez-Cyrus D, Kennedy BC, Kessler SK, Viaene AN, Helbig I, Gu X, Kleinman JE, Hyde TM, Weinberger DR, Nauen DW, Song H#, Ming GL#. A Single-Cell Transcriptome Atlas of Glia Diversity in the Human Hippocampus across the Postnatal Lifespan. Cell Stem Cell.2022 Nov 3;29(11):1594-1610.e8
  • Zhou Y*, Su Y*, Li S*, Kennedy BC, Zhang DY, Bond AM, Sun Y, Jacob F, Lu L, Hu P, Viaene AN, Helbig I, Kessler SK, Lucas T, Salinas RD, Gu X, Chen HI, Wu H, Kleinman JE, Hyde TM, Nauen DW, Weinberger DR, Ming GL, Song H.: Molecular landscapes of human hippocampal immature neurons across lifespan. Nature. 2022 Jul;607(7919):527-533.
  • Su Y, Shin J, Zhong C, Wang S, Roychowdhury P, Lim J, Kim D, Ming GL, Song H. Neuronal activity modifies the chromatin accessibility landscape in the adult brain. Nat Neurosci. 2017 Mar;20(3):476-483)
  • Su Y, Ming GL, Song H. DNA damage and repair regulate neuronal gene expression. Cell Res. 2015 Sep;25(9):993-4.
  • Guo JU*, Su Y*, Shin JH, Shin J, Li H, Xie B, Zhong C, Hu S, Le T, Fan G, Zhu H, Chang Q, Gao Y, Ming GL, Song H. Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain. Nat Neurosci. 2014 Feb;17(2):215-22.
  • Hu S*, Wan J*, Su Y*, Song Q, Zeng Y, Nguyen HN, Shin J, Cox E, Rho HS, Woodard C, Xia S, Liu S, Lyu H, Ming GL, Wade H, Song H, Qian J, Zhu H. DNA methylation presents distinct binding sites for human transcription factors. Elife. 2013 Sep 3;2:e00726.
  • Su Y, Zhang J, Tang Y, Bi F, Liu JN. The novel function of nesfatin-1: anti-hyperglycemia. Biochem Biophys Res Commun. 2010 Jan 1;391(1):1039-42.

Other Publications: Google Scholar

  • LaNoce E, Zhang D, Garcia-Epelboim A, Su Y, Sun Y, Alepa G, Angelucci AR, Akay-Espinoza C, Jordan-Sciutto K, Song H, Ming GL, Christian KM. Exposure to the antiretroviral drug dolutegravir impairs structure and neurogenesis in a forebrain organoid model of human embryonic cortical development. Frontiers in Molecular Neuroscience. 2024 Nov;17; (17)
  • Yu H, Nagi SS, Usoskin D, Hu Y, Kupari J, Bouchatta O, Yan H, Cranfill SL, Gautam M, Su Y, Lu Y, Wymer J, Glanz M, Albrecht P, Song H, Ming GL, Prouty S, Seykora J, Wu H, Ma M, Marshall A, Rice FL, Li M, Olausson H, Ernfors P, Luo W. Leveraging deep single-soma RNA sequencing to explore the neural basis of human somatosensation. Nat Neurosci. 2024 Nov 4;. doi: 10.1038/s41593-024-01794-1. [Epub ahead of print] PubMed PMID: 39496796.
  • Chen ZK, Quintanilla L, Su Y, Sheehy RN, Simon JM, Luo YJ, Li YD, Chen Z, Asrican B, Tart DS, Farmer WT, Ming GL, Song H, Song J. Septo-dentate gyrus cholinergic circuits modulate function and morphogenesis of adult neural stem cells through granule cell intermediaries. Proc Natl Acad Sci U S A. 2024 Oct;121(40):e2405117121. doi: 10.1073/pnas.2405117121. Epub 2024 Sep 23. PubMed PMID: 39312657

  • Zhou Y, Su Y, Ming GL, Song H. Special properties of adult neurogenesis in the human hippocampus: Implications for its clinical applications. Clin Transl Med. 2023 Feb;13(2):e1196. doi: 10.1002/ctm2.1196. PubMed PMID: 36740454
  • Huang WK, Wong SZH, Pather SR, Nguyen PTT, Zhang F, Zhang DY, Zhang Z, Lu L, Fang W, Chen L, Fernandes A, Su Y, Song H, Ming GL. Generation of hypothalamic arcuate organoids from human induced pluripotent stem cells. Cell Stem Cell. 2021 Sep 2;28(9):1657-1670.e10.
  • 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. Sliced Human Cortical Organoids for Modeling Distinct Cortical Layer Formation. Cell Stem Cell. 2020 May 7;26(5):766-781.e9
  • Wang X, Ye F, Wen Z, Guo Z, Yu C, Huang WK, Rojas Ringeling F, Su Y, Zheng W, Zhou G, Christian KM, Song H, Zhang M, Ming GL. Structural interaction between DISC1 and ATF4 underlying transcriptional and synaptic dysregulation in an iPSC model of mental disorders. Mol Psychiatry. 2019 Aug 23
  • Berg DA, Su Y, Jimenez-Cyrus D, Patel A, Huang N, Morizet D, Lee S, Shah R, Ringeling FR, Jain R, Epstein JA, Wu QF, Canzar S, Ming GL, Song H, Bond AM. A Common Embryonic Origin of Stem Cells Drives Developmental and Adult Neurogenesis. Cell. 2019 Apr 18;177(3):654-668.e15
  • Shi H, Zhang X, Weng YL, Lu Z, Liu Y, Lu Z, Li J, Hao P, Zhang Y, Zhang F, Wu Y, Delgado JY, Su Y, Patel MJ, Cao X, Shen B, Huang X, Ming GL, Zhuang X, Song H, He C, Zhou T. m6A facilitates hippocampus-dependent learning and memory through YTHDF1. Nature. 2018 Nov;563(7730):249-253
  • Zhou Y, Bond AM, Shade JE, Zhu Y, Davis CO, Wang X, Su Y, Yoon KJ, Phan AT, Chen WJ, Oh JH, Marsh-Armstrong N, Atabai K, Ming GL, Song H. Autocrine Mfge8 Signaling Prevents Developmental Exhaustion of the Adult Neural Stem Cell Pool. Cell Stem Cell. 2018 Sep 6;23(3):444-452.e4
  • Yoon KJ, Ringeling FR, Vissers C, Jacob F, Pokrass M, Jimenez-Cyrus D, Su Y, Kim NS, Zhu Y, Zheng L, Kim S, Wang X, Doré LC, Jin P, Regot S, Zhuang X, Canzar S, He C, Ming GL, Song H. Temporal Control of Mammalian Cortical Neurogenesis by m6A Methylation. Cell. 2017 Nov 2;171(4):877-889.e17
  • Wan J, Su Y, Song Q, Tung B, Oyinlade O, Liu S, Ying M, Ming GL, Song H, Qian J, Zhu H, Xia S. Methylated cis-regulatory elements mediate KLF4-dependent gene transactivation and cell migration. Elife. 2017 May 29;6
  • Karuppagounder SS, Alim I, Khim SJ, Bourassa MW, Sleiman SF, John R, Thinnes CC, Yeh TL, Demetriades M, Neitemeier S, Cruz D, Gazaryan I, Killilea DW, Morgenstern L, Xi G, Keep RF, Schallert T, Tappero RV, Zhong J, Cho S, Maxfield FR, Holman TR, Culmsee C, Fong GH, Su Y, Ming GL, Song H, Cave JW, Schofield CJ, Colbourne F, Coppola G, Ratan RR. Therapeutic targeting of oxygen-sensing prolyl hydroxylases abrogates ATF4-dependent neuronal death and improves outcomes after brain hemorrhage in several rodent models. Sci Transl Med. 2016 Mar 2;8(328):328ra29
  • Zeng Y, Yao B, Shin J, Lin L, Kim N, Song Q, Liu S, Su Y, Guo JU, Huang L, Wan J, Wu H, Qian J, Cheng X, Zhu H, Ming GL, Jin P, Song H. Lin28A Binds Active Promoters and Recruits Tet1 to Regulate Gene Expression. Mol Cell. 2016 Jan 7;61(1):153-60.
  • Yu H, Su Y, Shin J, Zhong C, Guo JU, Weng YL, Gao F, Geschwind DH, Coppola G, Ming GL, Song H. Tet3 regulates synaptic transmission and homeostatic plasticity via DNA oxidation and repair. Nat Neurosci. 2015 Jun;18(6):836-43.
  • Wen Z, Nguyen HN, Guo Z, Lalli MA, Wang X, Su Y, Kim NS, Yoon KJ, Shin J, Zhang C, Makri G, Nauen D, Yu H, Guzman E, Chiang CH, Yoritomo N, Kaibuchi K, Zou J, Christian KM, Cheng L, Ross CA, Margolis RL, Chen G, Kosik KS, Song H, Ming GL. Synaptic dysregulation in a human iPS cell model of mental disorders. Nature. 2014 Nov 20;515(7527):414-8.
  • Guo JU, Szulwach KE, Su Y, Li Y, Yao B, Xu Z, Shin JH, Xie B, Gao Y, Ming GL, Jin P, Song H. Genome-wide antagonism between 5-hydroxymethylcytosine and DNA methylation in the adult mouse brain. Front Biol (Beijing). 2014 Feb;9(1):66-74.
  • Jang MH, Bonaguidi MA, Kitabatake Y, Sun J, Song J, Kang E, Jun H, Zhong C, Su Y, Guo JU, Wang MX, Sailor KA, Kim JY, Gao Y, Christian KM, Ming GL, Song H. Secreted frizzled-related protein 3 regulates activity-dependent adult hippocampal neurogenesis. Cell Stem Cell. 2013 Feb 7;12(2):215-23.
  • Guo JU, Su Y, Zhong C, Ming GL, Song H. Emerging roles of TET proteins and 5-hydroxymethylcytosines in active DNA demethylation and beyond. Cell Cycle. 2011 Aug 15;10(16):2662-8.
  • Liu S, Wang J, Su Y, Guerrero C, Zeng Y, Mitra D, Brooks PJ, Fisher DE, Song H, Wang Y. Quantitative assessment of Tet-induced oxidation products of 5-methylcytosine in cellular and tissue DNA. Nucleic Acids Res. 2013 Jul;41(13):6421-9.
  • Guo JU, Su Y, Zhong C, Ming GL, Song H. Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. Cell. 2011 Apr 29;145(3):423-34.
  • Chiang CH, Su Y, Wen Z, Yoritomo N, Ross CA, Margolis RL, Song H, Ming GL. Integration-free induced pluripotent stem cells derived from schizophrenia patients with a DISC1 mutation. Mol Psychiatry. 2011 Apr;16(4):358-60.
  • Chen XY, Zhang W, Zhang W, Wu S, Bi F, Su Y, Tan XY, Liu JN, Zhang J. Vaccination with viable human umbilical vein endothelial cells prevents metastatic tumors by attack on tumor vasculature with both cellular and humoral immunity. Clin Cancer Res. 2006 Oct 1;12(19):5834-40.
  • Bi F, Zhang J, Su Y, Tang YC, Liu JN. Chemical conjugation of urokinase to magnetic nanoparticles for targeted thrombolysis. Biomaterials. 2009 Oct;30(28):5125-30