Browsing by Author "Brown, Myles"
Now showing items 21-33 of 33
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An Integrative Pharmacogenomic Approach Identifies Two-drug Combination Therapies for Personalized Cancer Medicine
Liu, Yin; Fei, Teng; Zheng, Xiaoqi; Brown, Myles; Zhang, Peng; Liu, X. Shirley; Wang, Haiyun (Nature Publishing Group, 2016)An individual tumor harbors multiple molecular alterations that promote cell proliferation and prevent apoptosis and differentiation. Drugs that target specific molecular alterations have been introduced into personalized ... -
MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens
Li, Wei; Xu, Han; Xiao, Tengfei; Cong, Le; Love, Michael I; Zhang, Feng; Irizarry, Rafael A; Liu, Jun S; Brown, Myles; Liu, X Shirley (BioMed Central, 2014)We propose the Model-based Analysis of Genome-wide CRISPR/Cas9 Knockout (MAGeCK) method for prioritizing single-guide RNAs, genes and pathways in genome-scale CRISPR/Cas9 knockout screens. MAGeCK demonstrates better ... -
Polycomb-independent activity of EZH2 in castration resistant prostate cancer
Xu, Kexin; Wu, Zhenhua; Groner, Anna Claire; He, Housheng H; Cai, Changmeng; Stack, Edward C; Loda, Massimo; Liu, Tao; Morrissey, Colm; Vessella, Robert L; Kantoff, Philip Wayne; Balk, Steven Paul; Liu, Xiaole Shirley; Brown, Myles Avery (BioMed Central, 2013) -
Polymorphic repeat in AIB1 does not alter breast cancer risk
Haiman, Christopher A; Hankinson, Susan Elizabeth; Spiegelman, Donna Lynn; Colditz, Graham A.; Willett, Walter C.; Speizer, Frank Erwin; Brown, Myles Avery; Hunter, David J. (BioMed Central, 2000)We assessed the association between a glutamine repeat polymorphism in AIB1 and breast cancer risk in a case-control study (464 cases, 624 controls) nested within the Nurses' Health Study cohort. We observed no association ... -
Primate-specific Evolution of an LDLR Enhancer
Wang, Qian-fei; Prabhakar, Shyam; Wang, Qianben; Moses, Alan M; Chanan, Sumita; Eisen, Michael B; Cheng, Jan-Fang; Rubin, Edward M; Boffelli, Dario; Brown, Myles Avery (BioMed Central, 2006)Background: Sequence changes in regulatory regions have often been invoked to explain phenotypic divergence among species, but molecular examples of this have been difficult to obtain. Results: In this study we identified ... -
Quality control, modeling, and visualization of CRISPR screens with MAGeCK-VISPR
Li, Wei; Köster, Johannes; Xu, Han; Chen, Chen-Hao; Xiao, Tengfei; Liu, Jun S.; Brown, Myles; Liu, X. Shirley (BioMed Central, 2015)High-throughput CRISPR screens have shown great promise in functional genomics. We present MAGeCK-VISPR, a comprehensive quality control (QC), analysis, and visualization workflow for CRISPR screens. MAGeCK-VISPR defines ... -
Response and resistance to BET bromodomain inhibitors in triple negative breast cancer
Shu, Shaokun; Lin, Charles Y.; He, Housheng Hansen; Witwicki, Robert M.; Tabassum, Doris P.; Roberts, Justin M.; Janiszewska, Michalina; Huh, Sung Jin; Liang, Yi; Ryan, Jeremy; Doherty, Ernest; Mohammed, Hisham; Guo, Hao; Stover, Daniel G.; Ekram, Muhammad B.; Brown, Jonathan; D'Santos, Clive; Krop, Ian E.; Dillon, Deborah; McKeown, Michael; Ott, Christopher; Qi, Jun; Ni, Min; Rao, Prakash K.; Duarte, Melissa; Wu, Shwu-Yuan; Chiang, Cheng-Ming; Anders, Lars; Young, Richard A.; Winer, Eric; Letai, Antony; Barry, William T.; Carroll, Jason S.; Long, Henry; Brown, Myles; Liu, X. Shirley; Meyer, Clifford A.; Bradner, James E.; Polyak, Kornelia (2015)Triple negative breast cancer (TNBC) is a heterogeneous and clinically aggressive disease for which there is no targeted therapy1-3. BET bromodomain inhibitors, which have shown efficacy in several models of cancer4-6, ... -
The Role of Coactivators in Oestrogen Action
Brown, Myles Avery; de Mora, J.F. (BioMed Central, 2000) -
The role of TRIM24 during prostate cancer progression
Groner, Anna Claire; Brown, Myles Avery (BioMed Central, 2013) -
Sequence determinants of improved CRISPR sgRNA design
Xu, Han; Xiao, Tengfei; Chen, Chen-Hao; Li, Wei; Meyer, Clifford; Wu, Qiu; Wu, Di; Cong, Le; Zhang, Feng; Liu, Jun; Brown, Myles A.; Liu, Xiaole (Shirley) Shirley (Cold Spring Harbor Laboratory Press, 2015)The CRISPR/Cas9 system has revolutionized mammalian somatic cell genetics. Genome-wide functional screens using CRISPR/Cas9-mediated knockout or dCas9 fusion-mediated inhibition/activation (CRISPRi/a) are powerful techniques ... -
TCF4 and CDX2, major transcription factors for intestinal function, converge on the same cis-regulatory regions
Verzi, M. P.; Hatzis, Phillip Evangelos; Sulahian, R.; Philips, J.; Schuijers, J.; Shin, H.; Freed, E.; Lynch, J. P.; Dang, D. T.; Brown, Myles A.; Clevers, H.; Liu, Xiaole (Shirley) Shirley; Shivdasani, Ramesh Arjun (Proceedings of the National Academy of Sciences, 2010)Surprisingly few pathways signal between cells, raising questions about mechanisms for tissue-specific responses. In particular, Wnt ligands signal in many mammalian tissues, including the intestinal epithelium, where ... -
Transcriptomic classification of genetically engineered mouse models of breast cancer identifies human subtype counterparts
Pfefferle, Adam D; Herschkowitz, Jason I; Usary, Jerry; Harrell, Joshua Chuck; Spike, Benjamin T; Adams, Jessica R; Torres-Arzayus, Maria I; Brown, Myles; Egan, Sean E; Wahl, Geoffrey M; Rosen, Jeffrey M; Perou, Charles M (BioMed Central, 2013)Background: Human breast cancer is a heterogeneous disease consisting of multiple molecular subtypes. Genetically engineered mouse models are a useful resource for studying mammary cancers in vivo under genetically controlled ... -
XBP1 Promotes Triple Negative Breast Cancer By Controlling the HIF1 α Pathway
Chen, Xi; Iliopoulos, Dimitrios; Zhang, Qing; Tang, Qianzi; Greenblatt, Matthew B.; Hatziapostolou, Maria; Lim, Elgene; Tam, Wai Leong; Ni, Min; Chen, Yiwen; Mai, Junhua; Shen, Haifa; Hu, Dorothy Z.; Adoro, Stanley; Hu, Bella; Song, Minkyung; Tan, Chen; Landis, Melissa D.; Ferrari, Mauro; Shin, Sandra J.; Brown, Myles; Chang, Jenny C.; Liu, X. Shirley; Glimcher, Laurie H. (2014)Cancer cells induce a set of adaptive response pathways to survive in the face of stressors due to inadequate vascularization1. One such adaptive pathway is the unfolded protein (UPR) or endoplasmic reticulum (ER) stress ...