Ye Zhang, Ph.D.

Ye Zhang, Ph.D.

Publications

• Xie Y, Reid CM, Turrero Garc?a M, Dale-Huang F, Granados AA, Lu Y, Li J, Hanson SM, Mancia Leon WR, Liu J, Adam M, Mosto O, Pisco AO, Zhang Y, Alvarez-Buylla A, Harwell CC. Astrocyte specification in the mouse septum is shaped by both developmental origin and local signals.. Nature neuroscience, 2025.
• Li J, Godoy MI, Lu Y, Zhang AJ, Diamante G, Rathbun E, Tian M, Ahn IS, Cebrian-Silla A, Alvarez-Buylla A, Yang X, Novitch BG, Carmichael ST, Zhang Y. Prdm16 regulates the postnatal fate of embryonic radial glia via Vcam1-dependent mechanisms.. Nature communications, 2025.
• Tian M, Kawaguchi R, Shen Y, Machnicki M, Villegas NG, Cooper DR, Montgomery N, Cai Y, Haring J, Lan R, Yuan AH, Williams CK, Magaki S, Vinters HV, Zhang Y, De Biase LM, Silva AJ, Carmichael ST. Deconstructing the intercellular interactome in vascular dementia with focal ischemia for therapeutic applications.. Cell, 2025.
• Liddelow SA, Zhang Y, Sloan SA. WebSEQ: A New Tool for Democratizing Omics Data Sharing.. Glia, 2024.
• Godoy MI, Pandey V, Wohlschlegel JA, Zhang Y. Secretome analysis of oligodendrocytes and precursors reveals their roles as contributors to the extracellular matrix and potential regulators of inflammation.. bioRxiv : the preprint server for biology, 2024.
• Rosenberg MF, Godoy MI, Wade SD, Paredes MF, Zhang Y, Molofsky AV. β-Adrenergic Signaling Promotes Morphological Maturation of Astrocytes in Female Mice.. The Journal of neuroscience : the official journal of the Society for Neuroscience, 2023.
• Krawczyk MC, Godoy M, Vander P, Zhang AJ, Zhang Y. Loss of Serpin E2 alters antimicrobial gene expression by microglia but not astrocytes.. Neuroscience letters, 2023.
• Li J*, Godoy M*, Zhang AJ, Diamante G, Ahn IS, Cebrian-Silla A, Alvarez-Buylla A, Yang X, Novitch BG, and Zhang Y. Prdm16 and Vcam1 regulate the postnatal disappearance of radial glia and the ending of cortical neurogenesis. BioRxiv, 2023.
• Krawczyk MC, Pan L, Zhang AJ, Zhang Y. Lymphocyte deficiency alters the transcriptomes of oligodendrocytes, but not astrocytes or microglia.. PloS one, 2023.
• Pan L, Trimarco A, Zhang AJ, Fujimori K, Urade Y, Sun LO, Taveggia C, Zhang Y. Oligodendrocyte-lineage cell exocytosis and L-type prostaglandin D synthase promote oligodendrocyte development and myelination.. eLife, 2023.
• Leng K, Rose IVL, Kim H, Xia W, Romero-Fernandez W, Rooney B, Koontz M, Li E, Ao Y, Wang S, Krawczyk M, Tcw J, Goate A, Zhang Y, Ullian EM, Sofroniew MV, Fancy SPJ, Schrag MS, Lippmann ES, Kampmann M. CRISPRi screens in human iPSC-derived astrocytes elucidate regulators of distinct inflammatory reactive states.. Nature neuroscience, 2022.
• Sapkota D, Kater MSJ, Sakers K, Nygaard KR, Liu Y, Koester SK, Fass SB, Lake AM, Khazanchi R, Khankan RR, Krawczyk MC, Smit AB, Maloney SE, Verheijen MHG, Zhang Y, Dougherty JD. Activity-dependent translation dynamically alters the proteome of the perisynaptic astrocyte process.. Cell reports, 2022.
• Krawczyk MC, Haney JR, Pan L, Caneda C, Khankan RR, Reyes SD, Chang JW, Morselli M, Vinters HV, Wang AC, Cobos I, Gandal MJ, Bergsneider M, Kim W, Liau LM, Yong W, Jalali A, Deneen B, Grant GA, Mathern GW, Fallah A, Zhang Y. Human Astrocytes Exhibit Tumor Microenvironment-, Age-, and Sex-Related Transcriptomic Signatures.. The Journal of neuroscience : the official journal of the Society for Neuroscience, 2022.
• Li Z, Siddique I, Hadrovic I, Kirupakaran A, Li J, Zhang Y, Klärner FG, Schrader T, Bitan G. Lysine-selective molecular tweezers are cell penetrant and concentrate in lysosomes.. Communications biology, 2021.
• Li J, Pan L, Pembroke WG, Rexach JE, Godoy MI, Condro MC, Alvarado AG, Harteni M, Chen YW, Stiles L, Chen AY, Wanner IB, Yang X, Goldman SA, Geschwind DH, Kornblum HI, Zhang Y. Conservation and divergence of vulnerability and responses to stressors between human and mouse astrocytes.. Nature communications, 2021.
• Li J, Khankan RR, Caneda C, Godoy MI, Haney MS, Krawczyk MC, Bassik MC, Sloan SA, Zhang Y. Astrocyte-to-astrocyte contact and a positive feedback loop of growth factor signaling regulate astrocyte maturation.. Glia, 2019.
• Darmanis S, Sloan SA, Croote D, Mignardi M, Chernikova S, Samghababi P, Zhang Y, Neff N, Kowarsky M, Caneda C, Li G, Chang SD, Connolly ID, Li Y, Barres BA, Gephart MH, Quake SR. Single-Cell RNA-Seq Analysis of Infiltrating Neoplastic Cells at the Migrating Front of Human Glioblastoma.. Cell reports, 2017.
• Watanabe M, Buth JE, Vishlaghi N, de la Torre-Ubieta L, Taxidis J, Khakh BS, Coppola G, Pearson CA, Yamauchi K, Gong D, Dai X, Damoiseaux R, Aliyari R, Liebscher S, Schenke-Layland K, Caneda C, Huang EJ, Zhang Y, Cheng G, Geschwind DH, Golshani P, Sun R, Novitch BG. Self-Organized Cerebral Organoids with Human-Specific Features Predict Effective Drugs to Combat Zika Virus Infection.. Cell reports, 2017.
• Dong X, Chen K, Cuevas-Diaz Duran R, You Y, Sloan SA, Zhang Y, Zong S, Cao Q, Barres BA, Wu JQ. Comprehensive Identification of Long Non-coding RNAs in Purified Cell Types from the Brain Reveals Functional LncRNA in OPC Fate Determination.. PLoS genetics, 2015.
• Zhang Y, Sloan SA, Clarke LE, Caneda C, Plaza CA, Blumenthal PD, Vogel H, Steinberg GK, Edwards MS, Li G, Duncan JA, Cheshier SH, Shuer LM, Chang EF, Grant GA, Gephart MG, Barres BA. Purification and Characterization of Progenitor and Mature Human Astrocytes Reveals Transcriptional and Functional Differences with Mouse.. Neuron, 2015.
• Larson VA, Zhang Y, Bergles DE. Electrophysiological properties of NG2(+) cells: Matching physiological studies with gene expression profiles.. Brain research, 2015.
• Darmanis S, Sloan SA, Zhang Y, Enge M, Caneda C, Shuer LM, Hayden Gephart MG, Barres BA, Quake SR. A survey of human brain transcriptome diversity at the single cell level.. Proceedings of the National Academy of Sciences of the United States of America, 2015.
• Yan Q, Weyn-Vanhentenryck SM, Wu J, Sloan SA, Zhang Y, Chen K, Wu JQ, Barres BA, Zhang C. Systematic discovery of regulated and conserved alternative exons in the mammalian brain reveals NMD modulating chromatin regulators.. Proceedings of the National Academy of Sciences of the United States of America, 2015.
• Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T, Barres BA, Wu JQ. An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex.. The Journal of neuroscience : the official journal of the Society for Neuroscience, 2014.
• Zhang Y, Barres BA. A smarter mouse with human astrocytes.. BioEssays : news and reviews in molecular, cellular and developmental biology, 2013.
• Zhang Y, Barres BA. Astrocyte heterogeneity: an underappreciated topic in neurobiology.. Current opinion in neurobiology, 2010.
• Zheng Y, Wildonger J, Ye B, Zhang Y, Kita A, Younger SH, Zimmerman S, Jan LY, Jan YN. Dynein is required for polarized dendritic transport and uniform microtubule orientation in axons.. Nature cell biology, 2008.
• Ye B, Zhang Y, Song W, Younger SH, Jan LY, Jan YN. Growing dendrites and axons differ in their reliance on the secretory pathway.. Cell, 2007.
• Ye B, Zhang YW, Jan LY, Jan YN. The secretory pathway and neuron polarization.. The Journal of neuroscience : the official journal of the Society for Neuroscience, 2006.