Publications

2022


  • The Human Pangenome Project: a global resource to map genomic diversity
    Ting Wang, Lucinda Antonacci-Fulton, Kerstin Howe, Heather A. Lawson, Julian K. Lucas, Adam M. Phillippy, Alice B. Popejoy, Mobin Asri, Caryn Carson, Mark J. P. Chaisson, Xian Chang, Robert Cook-Deegan, Adam L. Felsenfeld, Robert S. Fulton, Erik P. Garrison, Nanibaa’ A. Garrison, Tina A. Graves-Lindsay, Hanlee Ji, Eimear E. Kenny, Barbara A. Koenig, Daofeng Li, Tobias Marschall, Joshua F. McMichael, Adam M. Novak, Deepak Purushotham, Valerie A. Schneider, Baergen I. Schultz, Michael W. Smith, Heidi J. Sofia, Tsachy Weissman, Paul Flicek, Heng Li, Karen H. Miga, Benedict Paten, Erich D. Jarvis, Ira M. Hall, Evan E. Eichler, David Haussler & the Human Pangenome Reference Consortium
    Nature volume 604, pages 437–446 (2022)

2021


  • Human placental cytotrophoblast epigenome dynamics over gestation and alterations in placental disease
    Bo Zhang, M. Yvonne Kim, GiNell Elliot, Yan Zhou, Guangfeng Zhao, Daofeng Li, Rebecca F.Lowdon, Matthew Gormley, Mirhan Kapidzic, Joshua F.Robinson, Michael T. McMaster, Chibo Hong, Tali Mazor, Emily Hamilton, Renee L.Sears, Erica C.Pehrsson, Marco A. Marra, Steven J.M. Jones, Misha Bilenky, Martin Hirst, Ting Wang, Joseph F. Costello, Susan J. Fisher
    Developmental Cell Volume 56, Issue 9, 3 May 2021, Pages 1238-1252.e5

  • CRISPRi screens reveal a DNA methylation-mediated 3D genome dependent causal mechanism in prostate cancer
    Musaddeque Ahmed, Fraser Soares, Ji-Han Xia, Yue Yang, Jing Li, Haiyang Guo, Peiran Su, Yijun Tian, Hyung Joo Lee, Miranda Wang, Nayeema Akhtar, Kathleen E. Houlahan, Almudena Bosch, Stanley Zhou, Parisa Mazrooei, Junjie T. Hua, Sujun Chen, Jessica Petricca, Yong Zeng, Alastair Davies, Michael Fraser, David A. Quigley, Felix Y. Feng, Paul C. Boutros, Mathieu Lupien, Amina Zoubeidi, Liang Wang, Martin J. Walsh, Ting Wang, Shancheng Ren, Gong-Hong Wei & Housheng Hansen He
    Nature Communications volume 12, Article number: 1781 (2021)

2020


  • A map of cis-regulatory elements and 3D genome structures in zebrafish
    Hongbo Yang, Yu Luan, Tingting Liu, Hyung Joo Lee, Li Fang, Yanli Wang, Xiaotao Wang, Bo Zhang, Qiushi Jin, Khai Chung Ang, Xiaoyun Xing, Juan Wang, Jie Xu, Fan Song, Iyyanki Sriranga, Chachrit Khunsriraksakul, Tarik Salameh, Daofeng Li, Mayank N. K. Choudhary, Jacek Topczewski, Kai Wang, Glenn S. Gerhard, Ross C. Hardison, Ting Wang, Keith C. Cheng & Feng Yue
    Nature volume 588, pages337–343 (2020)

  • Cell-type-specific 3D epigenomes in the developing human cortex
    Michael Song, Mark-Phillip Pebworth, Xiaoyu Yang, Armen Abnousi, Changxu Fan, Jia Wen, Jonathan D. Rosen, Mayank N. K. Choudhary, Xiekui Cui, Ian R. Jones, Seth Bergenholtz, Ugomma C. Eze, Ivan Juric, Bingkun Li, Lenka Maliskova, Jerry Lee, Weifang Liu, Alex A. Pollen, Yun Li, Ting Wang, Ming Hu, Arnold R. Kriegstein & Yin Shen
    Nature volume 587, pages644–649 (2020)

  • Cellular diversity of the regenerating caudal fin
    Yiran Hou, Hyung Joo Lee, Yujie Chen, Jiaxin Ge, Fujr Osman Ibrahim Osman, Anthony R. McAdow, Mayssa H. Mokalled, Stephen L. Johnson, Guoyan Zhao and Ting Wang
    Science Advances 12 Aug 2020: Vol. 6, no. 33, eaba2084 DOI: 10.1126/sciadv.aba2084

  • Epigenomic programming in early fetal brain development
    Luolan Li, Cecile L Maire, Misha Bilenky, Annaïck Carles, Alireza Heravi-Moussavi, Chibo Hong, Angela Tam, Baljit Kamoh, Stephanie Cho, Dorothy Cheung, Irene Li, Tina Wong, Raman P Nagarajan, Andrew J Mungall, Richard Moore, Ting Wang, Claudia L Kleinman, Nada Jabado, Steven JM Jones, Marco A Marra, Keith L Ligon, Joseph F Costello & Martin Hirst
    EPIGENOMICS, Published Online:17 Jul 2020https://doi.org/10.2217/epi-2019-0319

  • A genomic and epigenomic atlas of prostate cancer in Asian populations
    Jing Li, Chuanliang Xu, Hyung Joo Lee, Shancheng Ren, Xiaoyuan Zi, Zhiming Zhang, Haifeng Wang, Yongwei Yu, Chenghua Yang, Xiaofeng Gao, Jianguo Hou, Linhui Wang, Bo Yang, Qing Yang, Huamao Ye, Tie Zhou, Xin Lu, Yan Wang, Min Qu, Qingsong Yang, Wenhui Zhang, Nakul M. Shah, Erica C. Pehrsson, Shuo Wang, Zengjun Wang, Jun Jiang, Yan Zhu, Rui Chen, Huan Chen, Feng Zhu, Bijun Lian, Xiaoyun Li, Yun Zhang, Chao Wang, Yue Wang, Guangan Xiao, Junfeng Jiang, Yue Yang, Chaozhao Liang, Jianquan Hou, Conghui Han, Ming Chen, Ning Jiang, Dahong Zhang, Song Wu, Jinjian Yang, Tao Wang, Yongliang Chen, Jiantong Cai, Wenzeng Yang, Jun Xu, Shaogang Wang, Xu Gao, Ting Wang & Yinghao Sun
    Nature (2020)

2019


  • WashU Epigenome Browser update 2019
    Daofeng Li, Silas Hsu, Deepak Purushotham, Renee L Sears and Ting Wang
    Nucleic Acids Research, Volume 47, Issue W1, 02 July 2019, Pages W158–W165

2018


  • Characterization of a Mouse Model of Börjeson-Forssman-Lehmann Syndrome
    Cheng Cheng, Pan-Yue Deng, Yoshiho Ikeuchi, Carla Yuede, Daofeng Li, Nicholas Rensing, Ju Huang, Dustin Baldridge, Susan E.Maloney, Joseph D.Dougherty, John Constantino, Arezu Jahani-Asl, Michael Wong, David F.Wozniak, Ting Wang, Vitaly A. Klyachko, Azad Bonni
    Cell Reports, Volume 25, Issue 6, 6 November 2018, Pages 1404-1414.e6

  • Genome-wide association study identifies a novel locus for cannabis dependence
    A Agrawal, Y-L Chou, C E Carey, D A A Baranger, B Zhang, R Sherva, L Wetherill, M Kapoor, J-C Wang, S Bertelsen, A P Anokhin, V Hesselbrock, J Kramer, M T Lynskey, J L Meyers, J I Nurnberger, J P Rice, J Tischfield, L J Bierut, L Degenhardt, L A Farrer, J Gelernter, A R Hariri, A C Heath, H R Kranzler, P A F Madden, N G Martin, G W Montgomery, B Porjesz, T Wang, J B Whitfield, H J Edenberg, T Foroud, A M Goate, R Bogdan, E C Nelson
    Molecular Psychiatry volume 23, pages 1293–1302 (2018)

2017


  • DNMT and HDAC inhibitors induce cryptic transcription start sites encoded in long terminal repeats
    David Brocks, Christopher R Schmidt, Michael Daskalakis, Hyo Sik Jang, Nakul M Shah, Daofeng Li, Jing Li, Bo Zhang, Yiran Hou, Sara Laudato, Daniel B Lipka, Johanna Schott, Holger Bierhoff, Yassen Assenov, Monika Helf, Alzbeta Ressnerova, Md Saiful Islam, Anders M Lindroth, Simon Haas, Marieke Essers, Charles D Imbusch, Benedikt Brors, Ina Oehme, Olaf Witt, Michael Lübbert, Jan-Philipp Mallm, Karsten Rippe, Rainer Will, Dieter Weichenhan, Georg Stoecklin, Clarissa Gerhäuser, Christopher C Oakes, Ting Wang & Christoph Plass
    Nature Genetics (2017) doi:10.1038/ng.3889

2016


2015


  • Parent-of-Origin Effects of the APOB Gene on Adiposity in Young Adults
    Hagit Hochner, Catherine Allard, Einat Granot-Hershkovitz, Jinbo Chen, Colleen M. Sitlani, Sandra Sazdovska, Thomas Lumley, Barbara McKnight, Kenneth Rice, Daniel A. Enquobahrie, James B. Meigs, Pui Kwok, Marie-France Hivert, Ingrid B. Borecki, Felicia Gomez, Ting Wang, Cornelia van Duijn, Najaf Amin, Jerome I. Rotter, John Stamatoyannopoulos, Vardiella Meiner, Orly Manor, Josée Dupuis, Yechiel Friedlander, David S. Siscovick
    PLoS Genet 11(10): e1005573. doi:10.1371/journal.pgen.1005573

  • Evidence of CNIH3 involvement in opioid dependence
    E C Nelson, A Agrawal, A C Heath, R Bogdan, R Sherva, B Zhang, R Al-Hasani, M R Bruchas, Y-L Chou, C H Demers, C E Carey, E D Conley, A K Fakira, L A Farrer, A Goate, S Gordon, A K Henders, V Hesselbrock, M Kapoor, M T Lynskey, P A F Madden, J A Moron, J P Rice, N L Saccone, S G Schwab, F L Shand, A A Todorov, L Wallace, T Wang, N R Wray, X Zhou, L Degenhardt, N G Martin, A R Hariri, H R Kranzler, J Gelernter, L J Bierut, D J Clark and G W Montgomery
    Molecular Psychiatry advance online publication 4 August 2015; doi: 10.1038/mp.2015.102

  • Integrative analysis of 111 reference human epigenomes
    Roadmap Epigenomics Consortium, Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour etc.al, Ting Wang, Manolis Kellis
    Nature 518, 317–330 (19 February 2015)

  • Intermediate DNA methylation is a conserved signature of genome regulation
    GiNell Elliott, Chibo Hong, Xiaoyun Xing, Xin Zhou, Daofeng Li, Cristian Coarfa, Robert J.A. Bell, Cecile L. Maire, Keith L. Ligon, Mahvash Sigaroudinia, Philippe Gascard, Thea D. Tlsty, R. Alan Harris, Leonard C. Schalkwyk, Misha Bilenky, Jonathan Mill, Peggy J. Farnham, Manolis Kellis, Marco A. Marra, Aleksandar Milosavljevic, Martin Hirst, Gary D. Stormo, Ting Wang & Joseph F. Costello
    Nature Communications 6, Article number: 6363 doi:10.1038/ncomms7363

2014


2013


2012


2011


  • The Human Epigenome Browser at Washington University.
    Zhou X, Maricque B, Xie M, Li D, Sundaram V, Martin E, Koebee B, Nielsen C, Hirst M, Farnham P, Kuhn R, Zhu J, Smirnov I,
    Kent J, Haussler D, Madden P, Costello JF, Wang T. (2011)
    Nat Methods 2011, 8(12):989-990

2010


  • Conserved role of intragenic DNA methylation in regulating alternative promoters.
    Maunakea AK, Nagarajan RP, Bilenky M, Ballinger TJ, D’Souza C, Fouse SD, Johnson BE, Hong C, Nielson C, Zhao Y, Turecki G, Delaney A, Varhol R, Thiessen N, Shchors K, Heine VM, Rowitch DH, Xing X, Fiore C, Schillebeeckx M, Jones SSJ, Haussler D, Marra MA, Hirst M, Wang T, Costello JF. (2010)
    Nature 2010, 466(7303):253-257.

Publications prior to the birth of Wang Lab


  • (2009) The UCSC Cancer Genomics Browser.
    Zhu J, Sanborn JZ, Benz S, Szeto C, Hsu F, Kuhn R, Karolchik D, Archie J, Lenburg M, Esserman L, Kent J, Haussler D, Wang T.
    Nature Methods 2009 Apr;6(4):239-40
    (Corresponding author)

  • (2009) The UCSC Genome Browser Database: update 2009.
    Kuhn, RM, Karolchik D, Zweig AS, Wang, T, Smith KE, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pheasant M, Meyer L, Hsu F, Hinrichs AS, Harte RA, Giardine B, Fujita P, Diekhans M, Dreszer T, Clawson H, Barber GP, Haussler D, Kent WJ.
    Nucleic Acids Res. 2009 Jan; 37:D755-D761

  • (2008) The UCSC Genome Browser Database: 2008 update.
    Karolchik D, Kuhn RM, Baertsch R, Barber GP, Clawson H, Diekhans M, Giardine B, Harte RA, Hinrichs AS, Hsu F, Kober KM, Miller W, Pedersen JS, Pohl A, Raney BJ, Rhead B, Rosenbloom KR, Smith KE, Stanke M, Thakkapallayil A, Trumbower H, Wang T, Zweig AS, Haussler D, Kent WJ.
    Nucleic Acids Res. 2008 Jan;36(Database issue):D773-9.