• Publications
  • Influence
Genome-wide analysis of estrogen receptor binding sites
The estrogen receptor is the master transcriptional regulator of breast cancer phenotype and the archetype of a molecular therapeutic target. We mapped all estrogen receptor and RNA polymerase IIExpand
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Chromosome-Wide Mapping of Estrogen Receptor Binding Reveals Long-Range Regulation Requiring the Forkhead Protein FoxA1
Estrogen plays an essential physiologic role in reproduction and a pathologic one in breast cancer. The completion of the human genome has allowed the identification of the expressed regions ofExpand
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Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
Oestrogen receptor-α (ER) is the defining and driving transcription factor in the majority of breast cancers and its target genes dictate cell growth and endocrine response, yet genomic understandingExpand
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FoxA1 Translates Epigenetic Signatures into Enhancer-Driven Lineage-Specific Transcription
Complex organisms require tissue-specific transcriptional programs, yet little is known about how these are established. The transcription factor FoxA1 is thought to contribute to gene regulationExpand
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Androgen Receptor Regulates a Distinct Transcription Program in Androgen-Independent Prostate Cancer
The evolution of prostate cancer from an androgen-dependent state to one that is androgen-independent marks its lethal progression. The androgen receptor (AR) is essential in both, though itsExpand
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A hierarchical network of transcription factors governs androgen receptor-dependent prostate cancer growth.
Androgen receptor (AR) is a ligand-dependent transcription factor that plays a key role in prostate cancer. Little is known about the nature of AR cis-regulatory sites in the human genome. We haveExpand
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Pioneer transcription factors: establishing competence for gene expression.
Transcription factors are adaptor molecules that detect regulatory sequences in the DNA and target the assembly of protein complexes that control gene expression. Yet much of the DNA in theExpand
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Model-based analysis of tiling-arrays for ChIP-chip
  • W. Johnson, Wei Li, +4 authors X. Liu
  • Biology, Medicine
  • Proceedings of the National Academy of Sciences
  • 15 August 2006
We propose a fast and powerful analysis algorithm, titled Model-based Analysis of Tiling-arrays (MAT), to reliably detect regions enriched by transcription factor chromatin immunoprecipitation (ChIP)Expand
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A CTCF-independent role for cohesin in tissue-specific transcription.
The cohesin protein complex holds sister chromatids in dividing cells together and is essential for chromosome segregation. Recently, cohesin has been implicated in mediating transcriptionalExpand
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FOXA1 is a critical determinant of Estrogen Receptor function and endocrine response
Estrogen receptor-α (ER) is the key feature of most breast cancers and binding of ER to the genome correlates with expression of the Forkhead protein FOXA1 (also called HNF3α). Here we show thatExpand
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