Comprehensive epigenetic landscape of rheumatoid arthritis fibroblast-like synoviocytes
Ai, Rizi, Laragione, Teresina, Hammaker, Deepa, Boyle, David L., Wildberg, Andre, Maeshima, Keisuke, Palescandolo, Emanuele, Krishna, Vinod, Pocalyko, David, Whitaker, John W., Bai, Yuchen, Nagpal, Sunil, Bachman, Kurtis E., Ainsworth, Richard I., Wang, Mengchi, Ding, Bo, Gulko, Percio S., Wang, Wei, Firestein, Gary S.
Published in Nature communications (15.05.2018)
Published in Nature communications (15.05.2018)
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Constructing 3D interaction maps from 1D epigenomes
Zhu, Yun, Chen, Zhao, Zhang, Kai, Wang, Mengchi, Medovoy, David, Whitaker, John W., Ding, Bo, Li, Nan, Zheng, Lina, Wang, Wei
Published in Nature communications (10.03.2016)
Published in Nature communications (10.03.2016)
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Predicting enhancer transcription and activity from chromatin modifications
Zhu, Yun, Sun, Lin, Chen, Zhao, Whitaker, John W, Wang, Tao, Wang, Wei
Published in Nucleic acids research (01.12.2013)
Published in Nucleic acids research (01.12.2013)
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Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells
Xie, Wei, Schultz, Matthew D., Lister, Ryan, Hou, Zhonggang, Rajagopal, Nisha, Ray, Pradipta, Whitaker, John W., Tian, Shulan, Hawkins, R. David, Leung, Danny, Yang, Hongbo, Wang, Tao, Lee, Ah Young, Swanson, Scott A., Zhang, Jiuchun, Zhu, Yun, Kim, Audrey, Nery, Joseph R., Urich, Mark A., Kuan, Samantha, Yen, Chia-an, Klugman, Sarit, Yu, Pengzhi, Suknuntha, Kran, Propson, Nicholas E., Chen, Huaming, Edsall, Lee E., Wagner, Ulrich, Li, Yan, Ye, Zhen, Kulkarni, Ashwinikumar, Xuan, Zhenyu, Chung, Wen-Yu, Chi, Neil C., Antosiewicz-Bourget, Jessica E., Slukvin, Igor, Stewart, Ron, Zhang, Michael Q., Wang, Wei, Thomson, James A., Ecker, Joseph R., Ren, Bing
Published in Cell (23.05.2013)
Published in Cell (23.05.2013)
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Integrative omics analysis of rheumatoid arthritis identifies non-obvious therapeutic targets
Whitaker, John W, Boyle, David L, Bartok, Beatrix, Ball, Scott T, Gay, Steffen, Wang, Wei, Firestein, Gary S
Published in PloS one (22.04.2015)
Published in PloS one (22.04.2015)
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LBH Gene Transcription Regulation by the Interplay of an Enhancer Risk Allele and DNA Methylation in Rheumatoid Arthritis
Hammaker, Deepa, Whitaker, John W., Maeshima, Keisuke, Boyle, David L., Ekwall, Anna‐Karin H., Wang, Wei, Firestein, Gary S.
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.11.2016)
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.11.2016)
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An imprinted rheumatoid arthritis methylome signature reflects pathogenic phenotype
Whitaker, John W, Shoemaker, Robert, Boyle, David L, Hillman, Josh, Anderson, David, Wang, Wei, Firestein, Gary S
Published in Genome medicine (30.04.2013)
Published in Genome medicine (30.04.2013)
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STAR: an integrated solution to management and visualization of sequencing data
Wang, Tao, Liu, Jie, Shen, Li, Tonti-Filippini, Julian, Zhu, Yun, Jia, Haiyang, Lister, Ryan, Whitaker, John W, Ecker, Joseph R, Millar, A Harvey, Ren, Bing, Wang, Wei
Published in Bioinformatics (15.12.2013)
Published in Bioinformatics (15.12.2013)
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Correction: Integrative Omics Analysis of Rheumatoid Arthritis Identifies Non-Obvious Therapeutic Targets
Whitaker, John W, Boyle, David L, Bartok, Beatrix, Ball, Scott T, Gay, Steffen, Wang, Wei, Firestein, Gary S
Published in PloS one (19.08.2015)
Published in PloS one (19.08.2015)
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DNA methylome signature in rheumatoid arthritis
Nakano, Kazuhisa, Whitaker, John W, Boyle, David L, Wang, Wei, Firestein, Gary S
Published in Annals of the rheumatic diseases (01.01.2013)
Published in Annals of the rheumatic diseases (01.01.2013)
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Abnormal PTPN11 enhancer methylation promotes rheumatoid arthritis fibroblast-like synoviocyte aggressiveness and joint inflammation
Maeshima, Keisuke, Stanford, Stephanie M, Hammaker, Deepa, Sacchetti, Cristiano, Zeng, Li-Fan, Ai, Rizi, Zhang, Vida, Boyle, David L, Aleman Muench, German R, Feng, Gen-Sheng, Whitaker, John W, Zhang, Zhong-Yin, Wang, Wei, Bottini, Nunzio, Firestein, Gary S
Published in JCI insight (19.05.2016)
Published in JCI insight (19.05.2016)
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Human body epigenome maps reveal noncanonical DNA methylation variation
Schultz, Matthew D., He, Yupeng, Whitaker, John W., Hariharan, Manoj, Mukamel, Eran A., Leung, Danny, Rajagopal, Nisha, Nery, Joseph R., Urich, Mark A., Chen, Huaming, Lin, Shin, Lin, Yiing, Jung, Inkyung, Schmitt, Anthony D., Selvaraj, Siddarth, Ren, Bing, Sejnowski, Terrence J., Wang, Wei, Ecker, Joseph R.
Published in Nature (London) (09.07.2015)
Published in Nature (London) (09.07.2015)
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Prediction of horizontal gene transfers in eukaryotes: approaches and challenges
Whitaker, John W, McConkey, Glenn A, Westhead, David R
Published in Biochemical Society transactions (01.08.2009)
Published in Biochemical Society transactions (01.08.2009)
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Identification of DNA motifs that regulate DNA methylation
Wang, Mengchi, Zhang, Kai, Ngo, Vu, Liu, Chengyu, Fan, Shicai, Whitaker, John W, Chen, Yue, Ai, Rizi, Chen, Zhao, Wang, Jun, Zheng, Lina, Wang, Wei
Published in Nucleic acids research (26.07.2019)
Published in Nucleic acids research (26.07.2019)
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Response to Marchetti et al
Rigel, Darrell S, Whitaker, John W, Skelsey, Maral K, Peck, Gary, Howell, Michael D, Jansen, Burkhard
Published in Journal of investigative dermatology (01.01.2022)
Published in Journal of investigative dermatology (01.01.2022)
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DNA Methylome Signature in Synoviocytes From Patients With Early Rheumatoid Arthritis Compared to Synoviocytes From Patients With Longstanding Rheumatoid Arthritis
Ai, Rizi, Whitaker, John W., Boyle, David L., Tak, Paul Peter, Gerlag, Danielle M., Wang, Wei, Firestein, Gary S.
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.07.2015)
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.07.2015)
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