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    Assembly and Validation of Versatile Transcription Activator-Like Effector Libraries 

    Li, Yi; Ehrhardt, Kristina; Zhang, Michael Q.; Bleris, Leonidas (Nature Publishing Group, 2014-05-06)
    The ability to perturb individual genes in genome-wide experiments has been instrumental in unraveling cellular and disease properties. Here we introduce, describe the assembly, and demonstrate the use of comprehensive and ...
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    ModuleRole: A Tool for Modulization, Role Determination and Visualization in Protein-Protein Interaction Networks 

    Li, GuiPeng; Li, Ming; Zhang, YiWei; Wang, Dong; Li, Rong; Guimera, Roger; Gao, Juntao Tony; Zhang, Michael Q. (Public Library of Science, 2014-05-01)
    Rapidly increasing amounts of (physical and genetic) protein-protein interaction (PPI) data are produced by various high-throughput techniques, and interpretation of these data remains a major challenge. In order to gain ...
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    Distinct and Predictive Histone Lysine Acetylation Patterns at Promoters, Enhancers, and Gene Bodies 

    Rajagopal, Nisha; Ernst, Jason; Ray, Pradipta; Wu, Jie; Zhang, Michael Q.; Kellis, Manolis; Ren, Bing (Genetics Society America, 2014-11-01)
    In eukaryotic cells, histone lysines are frequently acetylated. However, unlike modifications such as methylations, histone acetylation modifications are often considered redundant. As such, the functional roles of distinct ...
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    Nucleosome Eviction and Multiple Co-Factor Binding Predict Estrogen-Receptor-Alpha-Asociated Long-Range Interactions 

    He, C.; Wang, X.; Zhang, Michael Q. (Oxford University Press, 2014-04-29)
    Many enhancers regulate their target genes via long-distance interactions. High-throughput experiments like ChIA-PET have been developed to map such largely cell-type-specific interactions between cis-regulatory elements ...
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    CRISPR-Based Self-Cleaving Mechanism for Controllable Gene Delivery in Human Cells 

    Moore, Richard; Spinhirne, Alec; Lai, Michael J.; Preisser, Samantha; Li, Yi; Kang, Taek; Bleris, Leonidas (Oxford University Press, 2014-12-18)
    Controllable gene delivery via vector-based systems remains a formidable challenge in mammalian synthetic biology and a desirable asset in gene therapy applications. Here, we introduce a methodology to control the copies ...
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    Quantitative liver-specific protein fingerprint in blood: A signature for hepatotoxicity 

    Hu, Z.; Lausted, C.; Yoo, Hyuntae; Yan, X.; Brightman, A.; Chen, J.; Wang, W.; Bu, X.; Hood, L. (2014-01-14)
    We discuss here a new approach to detecting hepatotoxicity by employing concentration changes of liver-specific blood proteins during disease progression. These proteins are capable of assessing the behaviors of their ...
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    Miror: A Method for Cell-Type Specific MicroRNA Occupancy Rate Prediction 

    Xie, Peng; Liu, Yu; Li, Yanda; Zhang, Michael Q.; Wang, Xiaowo (Royal Soc Chemistry, 2014-03-13)
    MicroRNA (miRNA) regulation is highly cell-type specific. It is sensitive to both the miRNA-mRNA relative abundance and the competitive endogenous RNA (ceRNA) effect. However, almost all existing miRNA target prediction ...
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    Genome Wide Mapping of Foxo1 Binding-Sites in Murine T Lymphocytes 

    Liao, Will; Ouyang, Weiming; Zhang, Michael Q.; Li, Ming O. (Elsevier Inc, 2014-08-01)
    The Forkhead box O (Foxo) family of transcription factors has a critical role in controlling the development, differentiation, and function of T cells. However, the direct target genes of Foxo transcription factors in T ...

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    AuthorZhang, Michael Q. (3)Zhang, Michael Q. (3)Bleris, Leonidas (2)Li, Yi (2)Brightman, A. (1)Bu, X. (1)Chen, J. (1)Ehrhardt, Kristina (1)Ernst, Jason (1)Gao, Juntao Tony (1)... View MoreSubjectHistones (2)Acetylation (1)Bait sequences (1)BHMT protein (1)Binding sites (Biochemistry) (1)Biological Markers (1)birA protein (1)Breast--Cancer (1)Cas9 protein (1)Cell Polarity (1)... View MoreDate Issued
    2014 (8)
    Has File(s)Yes (8)

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