0710J3-生物信息学

DNA损伤修复

2012-09--2017-07   中国科学院大学   理学博士
2008-09--2012-06   华中科技大学   工学学士

   

2022-08~现在, 中国科学院分子细胞科学卓越创新中心, 研究员
2018-01~2022-08,美国癌症研究中心, 博士后

   

（1） 细胞生物学学会生命科学青年女科学家职业发展基金, 其他, 2024
（2） NCI Director’s intramural Innovation Award, 研究所（学校）, 2022
（3） NIH Fellows Award for Research Excellence Award, , 研究所（学校）, 2021

   

[1] Liang, Yu, Yuan, Qingqing, Zheng, Qijie, Mei, Zilv, Song, Yawei, Yan, Huan, Yang, Jiajie, Wu, Shuheng, Yuan, Jiao, Wu, Wei. DNA Damage Atlas: an atlas of DNA damage and repair. NUCLEIC ACIDS RESEARCH[J]. 2023, 第 10 作者  通讯作者  http://dx.doi.org/10.1093/nar/gkad845.
[2] Lihui Liu, Ziyang Liu, Qinghua Liu, Wei Wu, Peng Lin, Xing Liu, Yuechuan Zhang, Dongpeng Wang, Briana C Prager, Ryan C Gimple, Jichuan Yu, Weixi Zhao, Qiulian Wu, Wei Zhang, Erzhong Wu, Xiaomin Chen, Jianjun Luo, Jeremy N Rich, Qi Xie, Tao Jiang, Runsheng Chen. LncRNA INHEG promotes glioma stem cell maintenance and tumorigenicity through regulating rRNA 2’-O-methylation. NATURE COMMUNICATIONS[J]. 2023, 第 4 作者14(1): 1-18, https://doaj.org/article/89d5aa57675b4f25a388ae2c629d485a.
[3] Fowler, Faith C, Chen, BoRuei, Zolnerowich, Nicholas, Wu, Wei, Pavani, Raphael, Paiano, Jacob, Peart, Chelsea, Chen, Zulong, Nussenzweig, Andre, Sleckman, Barry P, Tyler, Jessica K. DNA-PK promotes DNA end resection at DNA double strand breaks in G(0) cells. ELIFE[J]. 2022, 第 4 作者11: http://dx.doi.org/10.7554/eLife.74700.
[4] MatosRodrigues, Gabriel, van Wietmarschen, Niek, Wu, Wei, Tripathi, Veenu, Koussa, Natasha C, Pavani, Raphael, Nathan, William J, Callen, Elsa, Belinky, Frida, Mohammed, Ashraf, Napierala, Marek, Usdin, Karen, Ansari, Aseem Z, Mirkin, Sergei M, Nussenzweig, Andre. S1-END-seq reveals DNA secondary structures in human cells. MOLECULAR CELL[J]. 2022, 第 3 作者82(19): 3538-+, http://dx.doi.org/10.1016/j.molcel.2022.08.007.
[5] Wang, Dongpeng, Wu, Wei, Callen, Elsa, Pavani, Raphael, Zolnerowich, Nicholas, Kodali, Srikanth, Zong, Dali, Wong, Nancy, Noriega, Santiago, Nathan, William J, MatosRodrigues, Gabriel, Chari, Raj, Kruhlak, Michael J, Livak, Ferenc, Ward, Michael, Caldecott, Keith, Di Stefano, Bruno, Nussenzweig, Andre. Active DNA demethylation promotes cell fate specification and the DNA damage response. SCIENCE[J]. 2022, 第 2 作者  通讯作者  378(6623): 983-989, 
[6] Fowler, Faith C, Chen, BoRuei, Zolnerowich, Nicholas, Wu, Wei, Pavani, Raphael, Paiano, Jacob, Peart, Chelsea, Chen, Zulong, Nussenzweig, Andre, Sleckman, Barry P, Tyler, Jessica K. DNA-PK promotes DNA end resection at DNA double strand breaks in G 0 cells. ELIFE[J]. 2022, 第 4 作者11: http://dx.doi.org/10.7554/eLife.74700.
[7] Wu, Wei, Hill, Sarah E, Nathan, William J, Paiano, Jacob, Callen, Elsa, Wang, Dongpeng, Shinoda, Kenta, van Wietmarschen, Niek, ColonMercado, Jennifer M, Zong, Dali, De Pace, Raffaella, Shih, HanYu, Coon, Steve, Parsadanian, Maia, Pavani, Raphael, Hanzlikova, Hana, Park, Solji, Jung, Seol Kyoung, McHugh, Peter J, Canela, Andres, Chen, Chongyi, Casellas, Rafael, Caldecott, Keith W, Ward, Michael E, Nussenzweig, Andre. Neuronal enhancers are hotspots for DNA single-strand break repair. NATURE[J]. 2021, 第 1 作者593(7859): 440-+, http://dx.doi.org/10.1038/s41586-021-03468-5.
[8] Teresa Olbrich, Maria VegaSendino, Desiree Tillo, Wei Wu, Nicholas Zolnerowich, Raphael Pavani, Andy D Tran, Catherine N Domingo, Mariajose Franco, Marta MarkiewiczPotoczny, Gianluca Pegoraro, Peter C FitzGerald, Michael J Kruhlak, Eros LazzeriniDenchi, Elphege P Nora, Andr Nussenzweig, Sergio Ruiz. CTCF is a barrier for 2C-like reprogramming. NATURE COMMUNICATIONS[J]. 2021, 第 4 作者12(1): http://dx.doi.org/10.1038/s41467-021-25072-x.
[9] Chen, BoRuei, Wang, Yinan, Tubbs, Anthony, Zong, Dali, Fowler, Faith C, Zolnerowich, Nicholas, Wu, Wei, Bennett, Amelia, Chen, ChunChin, Feng, Wendy, Nussenzweig, Andre, Tyler, Jessica K, Sleckman, Barry P. LIN37-DREAM prevents DNA end resection and homologous recombination at DNA double-strand breaks in quiescent cells. ELIFE[J]. 2021, 第 7 作者10: http://dx.doi.org/10.7554/eLife.68466.
[10] Shinoda, Kenta, Zong, Dali, Callen, Elsa, Wu, Wei, Dumitrache, Lavinia C, Belinky, Frida, Chari, Raj, Wong, Nancy, Ishikawa, Momoko, Stanlie, Andre, MulthauptBuell, Trisha, Sharma, Nutan, Ozelius, Laurie, Ehrlich, Michelle, McKinnon, Peter J, Nussenzweig, Andre. The dystonia gene THAP1 controls DNA double-strand break repair choice. MOLECULAR CELL[J]. 2021, 第 4 作者81(12): 2611-+, http://dx.doi.org/10.1016/j.molcel.2021.03.034.
[11] Paiano, Jacob, Zolnerowich, Nicholas, Wu, Wei, Pavani, Raphael, Wang, Chen, Li, Hongzhi, Zheng, Li, Shen, Binghui, Sleckman, Barry P, Chen, BoRuei, Nussenzweig, Andre. Role of 53BP1 in end protection and DNA synthesis at DNA breaks. GENES & DEVELOPMENT[J]. 2021, 第 3 作者35(19-20): 1356-1367, http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:000702459300004.
[12] Nacson, Joseph, Di Marcantonio, Daniela, Wang, Yifan, Bernhardy, Andrea J, Clausen, Emma, Hua, Xiang, Cai, Kathy Q, Martinez, Esteban, Feng, Wanjuan, Callen, Elsa, Wu, Wei, Gupta, Gaorav P, Testa, Joseph R, Nussenzweig, Andre, Sykes, Stephen M, Johnsons, Neil. BRCA1 Mutational Complementation Induces Synthetic Viability. MOLECULAR CELL[J]. 2020, 第 11 作者78(5): 951-+, http://dx.doi.org/10.1016/j.molcel.2020.04.006.
[13] Mahgoub, Mohamed, Paiano, Jacob, Bruno, Melania, Wu, Wei, Pathuri, Sarath, Zhang, Xing, Ralls, Sherry, Cheng, Xiaodong, Nussenzweig, Andre, Macfarlan, Todd S. Dual histone methyl reader ZCWPW1 facilitates repair of meiotic double strand breaks in male mice. ELIFE[J]. 2020, 第 4 作者9: https://doaj.org/article/1cd9ae76ec8f4b498b795ac0bd86cca7.
[14] Jacob Paiano, Wei Wu, Shintaro Yamada, Nicholas Sciascia, Elsa Callen, Ana Paola Cotrim, Rajashree A. Deshpande, Yaakov Maman, Amanda Day, Tanya T. Paull, Andr Nussenzweig. ATM and PRDM9 regulate SPO11-bound recombination intermediates during meiosis. NATURE COMMUNICATIONS[J]. 2020, 第 2 作者11(1): 1-15, 
[15] Sciascia, Nicholas, Wu, Wei, Zong, Dali, Sun, Yilun, Wong, Nancy, John, Sam, Wangsa, Darawalee, Ried, Thomas, Bunting, Samuel F, Pommier, Yves, Nussenzweig, Andre. Suppressing proteasome mediated processing of topoisomerase II DNA-protein complexes preserves genome integrity. ELIFE[J]. 2020, 第 2 作者9: 
[16] van Wietmarschen, Niek, Sridharan, Sriram, Nathan, William J, Tubbs, Anthony, Chan, Edmond M, Callen, Elsa, Wu, Wei, Belinky, Frida, Tripathi, Veenu, Wong, Nancy, Foster, Kyla, Noorbakhsh, Javad, Garimella, Kiran, CruzMigoni, Abimael, Sommers, Joshua A, Huang, Yongqing, Borah, Ashir A, Smith, Jonathan T, Kalfon, Jeremie, Kesten, Nikolas, Fugger, Kasper, Walker, Robert L, Dolzhenko, Egor, Eberle, Michael A, Hayward, Bruce E, Usdin, Karen, Freudenreich, Catherine H, Brosh, Robert M, Jr, West, Stephen C, McHugh, Peter J, Meltzer, Paul S, Bass, Adam J, Nussenzweig, Andre. Repeat expansions confer WRN dependence in microsatellite-unstable cancers. NATURE[J]. 2020, 第 7 作者586(7828): 292-+, http://dx.doi.org/10.1038/s41586-020-2769-8.
[17] Callen, Elsa, Zong, Dali, Wu, Wei, Wong, Nancy, Stanlie, Andre, Ishikawa, Momoko, Pavani, Raphael, Dumitrache, Lavinia C, Byrum, Andrea K, MendezDorantes, Carlos, Martinez, Paula, Canela, Andres, Maman, Yaakov, Day, Amanda, Kruhlak, Michael J, Blasco, Maria A, Stark, Jeremy M, Mosammaparast, Nima, McKinnon, Peter J, Nussenzweig, Andre. 53BP1 Enforces Distinct Pre- and Post-resection Blocks on Homologous Recombination. MOLECULAR CELL[J]. 2020, 第 3 作者77(1): 26-+, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6993210/.
[18] Wang, Yanying, Zhu, Pingping, Luo, Jianjun, VVang, Jing, Liu, Zhiwei, Wu, Wei, Du, Ying, Ye, Buqing, Wang, Dongpeng, He, Lei, Ren, Weizheng, Wang, Jianyi, Sun, Xianhui, Chen, Runsheng, Tian, Yong, Fan, Zusen. LncRNA HAND2-AS1 promotes liver cancer stem cell self-renewal via BMP signaling. EMBO JOURNAL[J]. 2019, 第 6 作者38(17): 
[19] Cui, Ya, Chen, Xiaowei, Niu, Yiwei, Wang, Dongpeng, Luo, Huaxia, Fan, Zhen, Wang, Dan, Wu, Wei, Teng, Xueyi, He, Shunmin, Luo, Jianjun, Chen, Runsheng. Dynamic-BM: multispecies Dynamic BodyMap database from temporal RNA-seq data. BRIEFINGS IN BIOINFORMATICS[J]. 2018, 第 8 作者19(6): 1302-1309, https://www.webofscience.com/wos/woscc/full-record/WOS:000456689400016.
[20] Ye, Buqing, Liu, Benyu, Yang, Liuliu, Zhu, Xiaoxiao, Zhang, Dongdong, Wu, Wei, Zhu, Pingping, Wang, Yanying, Wang, Shuo, Xia, Pengyan, Du, Ying, Meng, Shu, Huang, Guanling, Wu, Jiayi, Chen, Runsheng, Tian, Yong, Fan, Zusen. LncKdm2b controls self-renewal of embryonic stem cells via activating expression of transcription factor Zbtb3. EMBO JOURNAL[J]. 2018, 第 6 作者37(8): https://www.webofscience.com/wos/woscc/full-record/WOS:000430061000001.
[21] Tubbs, Anthony, Sridharan, Sriram, van Wietmarschen, Niek, Maman, Yaakov, Callen, Elsa, Stanlie, Andre, Wu, Wei, Wu, Xia, Day, Amanda, Wong, Nancy, Yin, Mianmian, Canela, Andres, Fu, Haiqing, Redon, Christophe, Pruitt, Steven C, Jaszczyszyn, Yan, Aladjem, Mirit I, Aplan, Peter D, Hyrien, Olivier, Nussenzweig, Andre. Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse. CELL[J]. 2018, 第 7 作者174(5): 1127-+, http://dx.doi.org/10.1016/j.cell.2018.07.011.
[22] Zhang, Zhuo, Jones, Amanda E, Wu, Wei, Kim, Jinman, Kang, Yue, Bi, Xiaobao, Gu, Yue, Popov, Ivan K, Renfrow, Matthew B, Vassylyeva, Marina N, Vassylyev, Dmitry G, Giles, Keith E, Chen, Dongquan, Kumar, Ashwath, Fan, Yuhong, Tong, Yufeng, Liu, ChuanFa, An, Woojin, Chang, Chenbei, Luo, Jianjun, Chow, Louise T, Wang, Hengbin. Role of remodeling and spacing factor 1 in histone H2A ubiquitination-mediated gene silencing. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2017, 第 3 作者114(38): E7949-E7958, https://www.webofscience.com/wos/woscc/full-record/WOS:000411157100014.
[23] Sun, Y, Wei, G, Luo, H, Wu, W, Skogerbo, G, Luo, J, Chen, R. The long noncoding RNA SNHG1 promotes tumor growth through regulating transcription of both local and distal genes. ONCOGENE[J]. 2017, 36(49): 6774-6783, https://www.webofscience.com/wos/woscc/full-record/WOS:000417282500003.
[24] Yan, Xinlong, Zhang, Dongdong, Wu, Wei, Wu, Shuheng, Qian, Jingfeng, Hao, Yajing, Yan, Fang, Zhu, Pingping, Wu, Jiayi, Huang, Guanling, Huang, Yinghui, Luo, Jianjun, Liu, Xinhui, Liu, Benyu, Chen, Xiaomin, Du, Ying, Chen, Runsheng, Fan, Zusen. Mesenchymal Stem Cells Promote Hepatocarcinogenesis via lncRNA-MUF Interaction with ANXA2 and miR-34a. CANCER RESEARCH[J]. 2017, 第 3 作者77(23): 6704-6716, http://dx.doi.org/10.1158/0008-5472.CAN-17-1915.
[25] Yuan, Jiao, Yue, Haiyan, Zhang, Meiying, Luo, Jianjun, Liu, Lihui, Wu, Wei, Xiao, Tengfei, Chen, Xiaowei, Chen, Xiaomin, Zhang, Dongdong, Xing, Rui, Tong, Xin, Wu, Nan, Zhao, Jian, Lu, Youyong, Guo, Mingzhou, Chen, Runsheng. Transcriptional profiling analysis and functional prediction of long noncoding RNAs in cancer. ONCOTARGET[J]. 2016, 第 6 作者7(7): 8131-8142, http://dx.doi.org/10.18632/oncotarget.6993.
[26] Hao, Yajing, Wu, Wei, Li, Hui, Yuan, Jiao, Luo, Jianjun, Zhao, Yi, Chen, Runsheng. NPInter v3.0: an upgraded database of noncoding RNA-associated interactions. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION[J]. 2016, 第 2 作者2016: 
[27] Zhao, Yi, Li, Hui, Fang, Shuangsang, Kang, Yue, Wu, Wei, Hao, Yajing, Li, Ziyang, Bu, Dechao, Sun, Ninghui, Zhang, Michael Q, Chen, Runsheng. NONCODE 2016: an informative and valuable data source of long non-coding RNAs. NUCLEIC ACIDS RESEARCH[J]. 2016, 第 5 作者44(D1): D203-D208, https://www.webofscience.com/wos/woscc/full-record/WOS:000371261700027.
[28] Chen, Jiahui, Liu, Lihui, Wei, Guifeng, Wu, Wei, Luo, Huaxia, Yuan, Jiao, Luo, Jianjun, Chen, Runsheng. The long noncoding RNA ASNR regulates degradation of Bcl-2 mRNA through its interaction with AUF1. SCIENTIFIC REPORTS[J]. 2016, 第 4 作者6: http://www.corc.org.cn/handle/1471x/2374402.
[29] 陈润生. NONCODEv4: exploring the world of long non-coding RNA genes. NUCLEIC ACIDS RESEARCH[J]. 2014, 42(30): D98-D103, https://www.webofscience.com/wos/woscc/full-record/WOS:000331139800016.
[30] Yuan, Jiao, Wu, Wei, Xie, Chaoyong, Zhao, Guoguang, Zhao, Yi, Chen, Runsheng. NPInter v2.0: an updated database of ncRNA interactions. NUCLEIC ACIDS RESEARCH[J]. 2014, 第 2 作者42(D1): D104-D108, http://dx.doi.org/10.1093/nar/gkt1057.