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1.

IGSF8 is an innate immune checkpoint and cancer immunotherapy target.

Li, Yulong; Wu, Xiangyang; Sheng, Caibin; Liu, Hailing; Liu, Huizhu; Tang, Yixuan; Liu, Chao; Ding, Qingyang; Xie, Bin; Xiao, Xi; Zheng, Rongbin; Yu, Quan; Guo, Zengdan; Ma, Jian; Wang, Jin; Gao, Jinghong; Tian, Mei; Wang, Wei; Zhou, Jia; Jiang, Li; Gu, Mengmeng; Shi, Sailing; Paull, Michael; Yang, Guanhua; Yang, Wei; Landau, Steve; Bao, Xingfeng; Hu, Xihao; Liu, X Shirley; Xiao, Tengfei.

Cell ; 187(11): 2703-2716.e23, 2024 May 23.

Article in English | MEDLINE | ID: mdl-38657602

2.

Topical therapy for regression and melanoma prevention of congenital giant nevi.

Choi, Yeon Sook; Erlich, Tal H; von Franque, Max; Rachmin, Inbal; Flesher, Jessica L; Schiferle, Erik B; Zhang, Yi; Pereira da Silva, Marcello; Jiang, Alva; Dobry, Allison S; Su, Mack; Germana, Sharon; Lacher, Sebastian; Freund, Orly; Feder, Ezra; Cortez, Jose L; Ryu, Suyeon; Babila Propp, Tamar; Samuels, Yedidyah Leo; Zakka, Labib R; Azin, Marjan; Burd, Christin E; Sharpless, Norman E; Liu, X Shirley; Meyer, Clifford; Austen, William Gerald; Bojovic, Branko; Cetrulo, Curtis L; Mihm, Martin C; Hoon, Dave S; Demehri, Shadmehr; Hawryluk, Elena B; Fisher, David E.

Cell ; 185(12): 2071-2085.e12, 2022 06 09.

Article in English | MEDLINE | ID: mdl-35561684

3.

In vivo CRISPR screens identify the E3 ligase Cop1 as a modulator of macrophage infiltration and cancer immunotherapy target.

Wang, Xiaoqing; Tokheim, Collin; Gu, Shengqing Stan; Wang, Binbin; Tang, Qin; Li, Yihao; Traugh, Nicole; Zeng, Zexian; Zhang, Yi; Li, Ziyi; Zhang, Boning; Fu, Jingxin; Xiao, Tengfei; Li, Wei; Meyer, Clifford A; Chu, Jun; Jiang, Peng; Cejas, Paloma; Lim, Klothilda; Long, Henry; Brown, Myles; Liu, X Shirley.

Cell ; 184(21): 5357-5374.e22, 2021 10 14.

Article in English | MEDLINE | ID: mdl-34582788

4.

Inhibitory CD161 receptor identified in glioma-infiltrating T cells by single-cell analysis.

Mathewson, Nathan D; Ashenberg, Orr; Tirosh, Itay; Gritsch, Simon; Perez, Elizabeth M; Marx, Sascha; Jerby-Arnon, Livnat; Chanoch-Myers, Rony; Hara, Toshiro; Richman, Alyssa R; Ito, Yoshinaga; Pyrdol, Jason; Friedrich, Mirco; Schumann, Kathrin; Poitras, Michael J; Gokhale, Prafulla C; Gonzalez Castro, L Nicolas; Shore, Marni E; Hebert, Christine M; Shaw, Brian; Cahill, Heather L; Drummond, Matthew; Zhang, Wubing; Olawoyin, Olamide; Wakimoto, Hiroaki; Rozenblatt-Rosen, Orit; Brastianos, Priscilla K; Liu, X Shirley; Jones, Pamela S; Cahill, Daniel P; Frosch, Matthew P; Louis, David N; Freeman, Gordon J; Ligon, Keith L; Marson, Alexander; Chiocca, E Antonio; Reardon, David A; Regev, Aviv; Suvà, Mario L; Wucherpfennig, Kai W.

Cell ; 184(5): 1281-1298.e26, 2021 03 04.

Article in English | MEDLINE | ID: mdl-33592174

5.

Rescue of Fragile X Syndrome Neurons by DNA Methylation Editing of the FMR1 Gene.

Liu, X Shawn; Wu, Hao; Krzisch, Marine; Wu, Xuebing; Graef, John; Muffat, Julien; Hnisz, Denes; Li, Charles H; Yuan, Bingbing; Xu, Chuanyun; Li, Yun; Vershkov, Dan; Cacace, Angela; Young, Richard A; Jaenisch, Rudolf.

Cell ; 172(5): 979-992.e6, 2018 02 22.

Article in English | MEDLINE | ID: mdl-29456084

6.

Applications of Immunogenomics to Cancer.

Liu, X Shirley; Mardis, Elaine R.

Cell ; 168(4): 600-612, 2017 02 09.

Article in English | MEDLINE | ID: mdl-28187283

7.

A high-resolution view of intra-tumoral B cell immunity.

Hu, Xihao; Liu, X Shirley.

Immunity ; 55(3): 387-389, 2022 03 08.

Article in English | MEDLINE | ID: mdl-35263565

8.

Editing DNA Methylation in the Mammalian Genome.

Liu, X Shawn; Wu, Hao; Ji, Xiong; Stelzer, Yonatan; Wu, Xuebing; Czauderna, Szymon; Shu, Jian; Dadon, Daniel; Young, Richard A; Jaenisch, Rudolf.

Cell ; 167(1): 233-247.e17, 2016 Sep 22.

Article in English | MEDLINE | ID: mdl-27662091

9.

Convergent transcription at intragenic super-enhancers targets AID-initiated genomic instability.

Meng, Fei-Long; Du, Zhou; Federation, Alexander; Hu, Jiazhi; Wang, Qiao; Kieffer-Kwon, Kyong-Rim; Meyers, Robin M; Amor, Corina; Wasserman, Caitlyn R; Neuberg, Donna; Casellas, Rafael; Nussenzweig, Michel C; Bradner, James E; Liu, X Shirley; Alt, Frederick W.

Cell ; 159(7): 1538-48, 2014 Dec 18.

Article in English | MEDLINE | ID: mdl-25483776

10.

Transfer learning enables predictions in network biology.

Theodoris, Christina V; Xiao, Ling; Chopra, Anant; Chaffin, Mark D; Al Sayed, Zeina R; Hill, Matthew C; Mantineo, Helene; Brydon, Elizabeth M; Zeng, Zexian; Liu, X Shirley; Ellinor, Patrick T.

Nature ; 618(7965): 616-624, 2023 Jun.

Article in English | MEDLINE | ID: mdl-37258680

11.

Systematic characterization of mutations altering protein degradation in human cancers.

Tokheim, Collin; Wang, Xiaoqing; Timms, Richard T; Zhang, Boning; Mena, Elijah L; Wang, Binbin; Chen, Cynthia; Ge, Jun; Chu, Jun; Zhang, Wubing; Elledge, Stephen J; Brown, Myles; Liu, X Shirley.

Mol Cell ; 81(6): 1292-1308.e11, 2021 03 18.

Article in English | MEDLINE | ID: mdl-33567269

12.

Genome-wide map of nuclear protein degradation shows NCoR1 turnover as a key to mitochondrial gene regulation.

Catic, André; Suh, Carol Y; Hill, Cedric T; Daheron, Laurence; Henkel, Theresa; Orford, Keith W; Dombkowski, David M; Liu, Tao; Liu, X Shirley; Scadden, David T.

Cell ; 155(6): 1380-95, 2013 Dec 05.

Article in English | MEDLINE | ID: mdl-24315104

13.

Synthetic Lethal and Resistance Interactions with BET Bromodomain Inhibitors in Triple-Negative Breast Cancer.

Shu, Shaokun; Wu, Hua-Jun; Ge, Jennifer Y; Zeid, Rhamy; Harris, Isaac S; Jovanovic, Bojana; Murphy, Katherine; Wang, Binbin; Qiu, Xintao; Endress, Jennifer E; Reyes, Jaime; Lim, Klothilda; Font-Tello, Alba; Syamala, Sudeepa; Xiao, Tengfei; Reddy Chilamakuri, Chandra Sekhar; Papachristou, Evangelia K; D'Santos, Clive; Anand, Jayati; Hinohara, Kunihiko; Li, Wei; McDonald, Thomas O; Luoma, Adrienne; Modiste, Rebecca J; Nguyen, Quang-De; Michel, Brittany; Cejas, Paloma; Kadoch, Cigall; Jaffe, Jacob D; Wucherpfennig, Kai W; Qi, Jun; Liu, X Shirley; Long, Henry; Brown, Myles; Carroll, Jason S; Brugge, Joan S; Bradner, James; Michor, Franziska; Polyak, Kornelia.

Mol Cell ; 78(6): 1096-1113.e8, 2020 06 18.

Article in English | MEDLINE | ID: mdl-32416067

14.

Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development.

Xu, Yufei; Xu, Chao; Kato, Akiko; Tempel, Wolfram; Abreu, Jose Garcia; Bian, Chuanbing; Hu, Yeguang; Hu, Di; Zhao, Bin; Cerovina, Tanja; Diao, Jianbo; Wu, Feizhen; He, Housheng Hansen; Cui, Qingyan; Clark, Erin; Ma, Chun; Barbara, Andrew; Veenstra, Gert Jan C; Xu, Guoliang; Kaiser, Ursula B; Liu, X Shirley; Sugrue, Stephen P; He, Xi; Min, Jinrong; Kato, Yoichi; Shi, Yujiang Geno.

Cell ; 151(6): 1200-13, 2012 Dec 07.

Article in English | MEDLINE | ID: mdl-23217707

15.

Tumor resistance to anti-mesothelin CAR-T cells caused by binding to shed mesothelin is overcome by targeting a juxtamembrane epitope.

Liu, X F; Onda, M; Schlomer, J; Bassel, L; Kozlov, S; Tai, C-H; Zhou, Q; Liu, W; Tsao, H-E; Hassan, R; Ho, M; Pastan, I.

Proc Natl Acad Sci U S A ; 121(4): e2317283121, 2024 Jan 23.

Article in English | MEDLINE | ID: mdl-38227666

16.

Large Fermi surface in pristine kagome metal CsV₃Sb₅ and enhanced quasiparticle effective masses.

Zhang, Wei; Poon, Tsz Fung; Tsang, Chun Wai; Wang, Wenyan; Liu, X; Xie, J; Lam, S T; Wang, Shanmin; Lai, Kwing To; Pourret, A; Seyfarth, G; Knebel, G; Yu, Wing Chi; Goh, Swee K.

Proc Natl Acad Sci U S A ; 121(21): e2322270121, 2024 May 21.

Article in English | MEDLINE | ID: mdl-38753515

17.

Efficient and accurate KIR and HLA genotyping with massively parallel sequencing data.

Song, Li; Bai, Gali; Liu, X Shirley; Li, Bo; Li, Heng.

Genome Res ; 33(6): 923-931, 2023 06.

Article in English | MEDLINE | ID: mdl-37169596

18.

MeCP2 links heterochromatin condensates and neurodevelopmental disease.

Li, Charles H; Coffey, Eliot L; Dall'Agnese, Alessandra; Hannett, Nancy M; Tang, Xin; Henninger, Jonathan E; Platt, Jesse M; Oksuz, Ozgur; Zamudio, Alicia V; Afeyan, Lena K; Schuijers, Jurian; Liu, X Shawn; Markoulaki, Styliani; Lungjangwa, Tenzin; LeRoy, Gary; Svoboda, Devon S; Wogram, Emile; Lee, Tong Ihn; Jaenisch, Rudolf; Young, Richard A.

Nature ; 586(7829): 440-444, 2020 10.

Article in English | MEDLINE | ID: mdl-32698189

19.

MIRA: joint regulatory modeling of multimodal expression and chromatin accessibility in single cells.

Lynch, Allen W; Theodoris, Christina V; Long, Henry W; Brown, Myles; Liu, X Shirley; Meyer, Clifford A.

Nat Methods ; 19(9): 1097-1108, 2022 09.

Article in English | MEDLINE | ID: mdl-36068320

20.

Inhibition of EZH2 transactivation function sensitizes solid tumors to genotoxic stress.

Liao, Yiji; Chen, Chen-Hao; Xiao, Tengfei; de la Peña Avalos, Bárbara; Dray, Eloise V; Cai, Changmeng; Gao, Shuai; Shah, Neel; Zhang, Zhao; Feit, Avery; Xue, Pengya; Liu, Zhijie; Yang, Mei; Lee, Ji Hoon; Xu, Han; Li, Wei; Mei, Shenglin; Pierre, Roodolph S; Shu, Shaokun; Fei, Teng; Duarte, Melissa; Zhao, Jin; Bradner, James E; Polyak, Kornelia; Kantoff, Philip W; Long, Henry; Balk, Steven P; Liu, X Shirley; Brown, Myles; Xu, Kexin.

Proc Natl Acad Sci U S A ; 119(3)2022 01 18.

Article in English | MEDLINE | ID: mdl-35031563

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