Predicting the Human Epigenome from DNA Motifs

Por Whitaker, John W., Chen, Zhao, Wang, Wei
Publicado no Nat Methods (2014)

The Transcriptional Response to DNA-Double-Strand Breaks in Physcomitrella patens

Por Kamisugi, Yasuko, Whitaker, John W., Cuming, Andrew C.
Publicado no PLoS One (2016)

The transferome of metabolic genes explored: analysis of the horizontal transfer of enzyme encoding genes in unicellular eukaryotes

Por Whitaker, John W, McConkey, Glenn A, Westhead, David R
Publicado em 2009

Computational schemes for the prediction and annotation of enhancers from epigenomic assays

Por Whitaker, John W., Nguyen, Tung T., Zhu, Yun, Wildberg, Andre, Wang, Wei
Publicado no Methods (2014)

metaTIGER: a metabolic evolution resource

Por Whitaker, John W., Letunic, Ivica, McConkey, Glenn A., Westhead, David R.
Publicado em 2009

DNA methylome signature in rheumatoid arthritis

Por Nakano, Kazuhisa, Whitaker, John W, Boyle, David L, Wang, Wei, Firestein, Gary S
Publicado em 2012

Predicting enhancer transcription and activity from chromatin modifications

Por Zhu, Yun, Sun, Lin, Chen, Zhao, Whitaker, John W., Wang, Tao, Wang, Wei
Publicado em 2013

Epipolymorphisms associated with the clinical outcome of autoimmune arthritis affect CD4(+) T cell activation pathways

Por Spreafico, Roberto, Rossetti, Maura, Whitaker, John W., Wang, Wei, Lovell, Daniel J., Albani, Salvatore
Publicado no Proc Natl Acad Sci U S A (2016)

An imprinted rheumatoid arthritis methylome signature reflects pathogenic phenotype

Por Whitaker, John W, Shoemaker, Robert, Boyle, David L, Hillman, Josh, Anderson, David, Wang, Wei, Firestein, Gary S
Publicado em 2013

Integrative Omics Analysis of Rheumatoid Arthritis Identifies Non-Obvious Therapeutic Targets

Por Whitaker, John W., Boyle, David L., Bartok, Beatrix, Ball, Scott T., Gay, Steffen, Wang, Wei, Firestein, Gary S.
Publicado no PLoS One (2015)

The Rheumatoid Arthritis Risk Gene LBH Regulates Growth in Fibroblast-like Synoviocytes

Por Ekwall, Anna-Karin H., Whitaker, John W., Hammaker, Deepa, Bugbee, William D., Wang, Wei, Firestein, Gary S.
Publicado no Arthritis Rheumatol (2015)

Correction: Integrative Omics Analysis of Rheumatoid Arthritis Identifies Non-Obvious Therapeutic Targets

Por Whitaker, John W., Boyle, David L., Bartok, Beatrix, Ball, Scott T., Gay, Steffen, Wang, Wei, Firestein, Gary S.
Publicado no PLoS One (2015)

Global identification of transcriptional regulators of pluripotency and differentiation in embryonic stem cells

Por Won, Kyoung-Jae, Xu, Zheng, Zhang, Xian, Whitaker, John W., Shoemaker, Robert, Ren, Bing, Xu, Yang, Wang, Wei
Publicado em 2012

DNA Methylome Signature in Early Rheumatoid Arthritis Synoviocytes Compared with Longstanding Rheumatoid Arthritis Synoviocytes

Por Ai, Rizi, Whitaker, John W., Boyle, David L., Tak, Paul Peter, Gerlag, Danielle M., Wang, Wei, Firestein, Gary S.
Publicado no Arthritis Rheumatol (2015)

Limb Bud and Heart Development Gene Transcription is Regulated by the Interplay of an Enhancer Risk Allele and DNA Methylation in Rheumatoid Arthritis

Por Hammaker, Deepa, Whitaker, John W., Maeshima, Keisuke, Boyle, David L., Ekwall, Anna-Karin H., Wang, Wei, Firestein, Gary S.
Publicado no Arthritis Rheumatol (2016)

Constructing 3D interaction maps from 1D epigenomes

Por Zhu, Yun, Chen, Zhao, Zhang, Kai, Wang, Mengchi, Medovoy, David, Whitaker, John W., Ding, Bo, Li, Nan, Zheng, Lina, Wang, Wei
Publicado no Nat Commun (2016)

Integrative genomic deconvolution of rheumatoid arthritis GWAS loci into gene and cell type associations

Por Walsh, Alice M., Whitaker, John W., Huang, C. Chris, Cherkas, Yauheniya, Lamberth, Sarah L., Brodmerkel, Carrie, Curran, Mark E., Dobrin, Radu
Publicado no Genome Biol (2016)

STAR: an integrated solution to management and visualization of sequencing data

Por 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
Publicado em 2013

Abnormal PTPN11 enhancer methylation promotes rheumatoid arthritis fibroblast-like synoviocyte aggressiveness and joint inflammation

Por 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.
Publicado no JCI Insight (2016)

Human Body Epigenome Maps Reveal Noncanonical DNA Methylation Variation

Por 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.
Publicado no Nature (2015)