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人员

  • 简要介绍:杨禹丞于清华大学获得生物信息学博士学位,在耶鲁大学进行博士后研究。主要从事利用高通量功能基因组学测序数据的计算基因组学研究,致力于通过大数据整合挖掘以及数据库构建等手段研究基因表达调控机制,及其在大脑发育与疾病过程中的作用。近年来以第一作者和通讯作者(含共同)在Cell、Cell Research、Nucleic Acids Research、Genome Medicine、Briefings in Bioinformatics等期刊发表多篇论文。发表研究论文曾入选2021年度“中国生物信息学十大进展”。主持或参与上海市自然科学面上项目、上海市重大科技专项、科技部重点研发计划等项目。
  • 代表成果:

    1.X Zhao*, L Song*, A Yang, Z Zhang, J Zhang,YT Yang, X-M Zhao. (2023) Prioritizing genes associated with brain disorders by leveraging enhancer-promoter interactions in diverse neural cells and tissues.Genome Medicine15, 56.

    2.J Rozowsky*, J Gao*, B Borsari*,YT Yang*, T Galeev*, G Gursoy*, CB Epstein*, K Xiong*, J Xu*, T Li*, J Liu*, K Yu, A Berthel, Z Chen, F Navarro, MS Sun, J Wright, J Chang, CJF Cameron, N Shoresh, E Gaskell, J Drenkow, J Adrian, S Aganezov, F Aguet, G Balderrama-Gutierrez, S Banskota, GB Corona, S Chee, SB Chhetri, G Conte C Martins, C Danyko, CA Davis, D Farid, NP Farrell, I Gabdank, Y Gofin, DU Gorkin, M Gu, V Hecht, BC Hitz, R Issner, Y Jiang, M Kirsche, X Kong, BR Lam, S Li, B Li, X Li, KZ Lin, R Luo, M Mackiewicz, R Meng, JE Moore, J Mudge, N Nelson, C Nusbaum, I Popov, HE Pratt, Y Qiu, S Ramakrishnan, J Raymond, L Salichos, A Scavelli, JM Schreiber, FJ Sedlazeck, LH See, RM Sherman, X Shi, M Shi, CA Sloan, JS Strattan, Z Tan, FY Tanaka, A Vlasova, J Wang, J Werner, B Williams, M Xu, C Yan, L Yu, C Zaleski, J Zhang, K Ardlie, JM Cherry, EM Mendenhall, WS Noble, Z Weng, ME Levine, A Dobin, B Wold, A Mortazavi, B Ren, J Gillis, RM Myers, MP Snyder, J Choudhary, A Milosavljevic, MC Schatz, BE Bernstein, R Guigó, TR Gingeras, M Gerstein. (2023) The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models.Cell186(7), 1493-1511.

    3.X Zhao*, A Yang*, ZC Zhang,YT Yang, X-M Zhao. (2023) Deciphering the genetic architecture of human brain structure and function: a brief survey on recent advances of neuroimaging genomics.Briefings in Bioinformatics24(2), bbad060.

    4.W Zhao*, S Zhang*, Y Zhu, X Xi, P Bao, Z Ma, TH Kapral, S Chen, B Zagrovic,YT Yang, ZJ Lu. (2022) POSTAR3: an updated platform for exploring post-transcriptional regulation coordinated by RNA-binding proteins.Nucleic Acids Research50(D1), D287-D294.

    5.L Sun*, K Xu*, W Huang*,YT Yang*, P Li, L Tang, T Xiong, QC Zhang. (2021) Predicting dynamic cellular protein-RNA interactions by deep learning using in vivo RNA structure.Cell Research31(5), 495-516.

    6.D Wang*, S Liu*, J Warrell*, H Won*, X Shi*, FCP Navarro*, D Clarke*, M Gu*, P Emani*,YT Yang, M Xu, MJ Gandal, S Lou, J Zhang, JJ Park, C Yan, SK Rhie, K Manakongtreecheep, H Zhou, A Nathan, M Peters, E Mattei, D Fitzgerald, T Brunetti, J Moore, Y Jiang, K Girdhar, GE Hoffman, S Kalayci, ZH Gümüş, GE Crawford, PsychENCODE Consortium, P Roussos, S Akbarian, AE Jaffe, KP White, Z Weng, N Sestan, DH Geschwind, JA Knowles, MB Gerstein. (2018) Comprehensive functional genomic resource and integrative model for the human brain.Science362(6420), eaat8464.

    7.YT Yang*, C Di*, B Hu*, M Zhou, Y Liu, N Song, Y Li, J Umetsu, ZJ Lu. (2015) CLIPdb: a CLIP-seq database for protein-RNA interactions.BMC Genomics16(1), 51-58.