Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression

Hua, Sujun; Kallen, Caleb B.; Dhar, Ruby; Baquero, Maria T.; Mason, Christopher E.; Russell, Beth A.; Shah, Parantu K.; Liu, Jiang; Khramtsov, Andrey; Tretiakova, Maria S.; Krausz, Thomas N.; Olopade, Olufunmilayo I.; Rimm, David L.; White, Kevin P.

doi:10.1038/msb.2008.25

Title: Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression

Journal Article · Tue Apr 15 00:00:00 EDT 2008 · Molecular Systems Biology

DOI:https://doi.org/10.1038/msb.2008.25· OSTI ID:1623789

Hua, Sujun ^[1]; Kallen, Caleb B. ^[2]; Dhar, Ruby ^[3]; Baquero, Maria T. ^[4]; Mason, Christopher E. ^[4]; Russell, Beth A. ^[1]; Shah, Parantu K. ^[3]; Liu, Jiang ^[3]; Khramtsov, Andrey ^[5]; Tretiakova, Maria S. ^[6]; Krausz, Thomas N. ^[6]; Olopade, Olufunmilayo I. ^[5]; Rimm, David L. ^[7]; White, Kevin P. ^[3]

Univ. of Chicago, IL (United States); Argonne National Lab. (ANL), Argonne, IL (United States); Joint Inst. for Genomics and Systems Biology Chicago, IL (United States); Yale Univ., New Haven, CT (United States)
Emory Univ., Atlanta, GA (United States)
Univ. of Chicago, IL (United States); Argonne National Lab. (ANL), Argonne, IL (United States); Joint Inst. for Genomics and Systems Biology Chicago, IL (United States)
Yale Univ., New Haven, CT (United States)
Univ. of Chicago Medical Center, IL (United States)
Univ. of Chicago Hospitals, IL (United States)
Yale Univ., New Haven, CT (United States). Dept. of Pathology

We demonstrate an integrated approach to the study of a transcriptional regulatory cascade involved in the progression of breast cancer and we identify a protein associated with disease progression. Using chromatin immunoprecipitation and genome tiling arrays, whole genome mapping of transcription factor-binding sites was combined with gene expression profiling to identify genes involved in the proliferative response to estrogen (E2). Using RNA interference, selected ERa and c-MYC gene targets were knocked down to identify mediators of E2-stimulated cell proliferation. Tissue microarray screening revealed that high expression of an epigenetic factor, the E2-inducible histone variant H2A.Z, is significantly associated with lymph node metastasis and decreased breast cancer survival. Detection of H2A.Z levels independently increased the prognostic power of biomarkers currently in clinical use. This integrated approach has accelerated the identification of a molecule linked to breast cancer progression, has implications for diagnostic and therapeutic interventions, and can be applied to a wide range of cancers.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: WM Keck Foundation; Arnold and Mabel Beckman Foundation; National Institutes of Health (NIH); Society for Gynecologic Investigation

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1623789

Journal Information:: Molecular Systems Biology, Vol. 4, Issue 1; ISSN 1744-4292

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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TOX3 is expressed in mammary ER+ epithelial cells and regulates ER target genes in luminal breast cancer Seksenyan, Akop; Kadavallore, Asha; Walts, Ann E. BMC Cancer, Vol. 15, Issue 1 https://doi.org/10.1186/s12885-015-1018-2	journal	January 2015
Dynamic changes in chromatin states during specification and differentiation of adult intestinal stem cells Kazakevych, Juri; Sayols, Sergi; Messner, Berith Nucleic Acids Research, Vol. 45, Issue 10 https://doi.org/10.1093/nar/gkx167	journal	March 2017
Nuclear receptors in cancer — uncovering new and evolving roles through genomic analysis Dhiman, Vineet K.; Bolt, Michael J.; White, Kevin P. Nature Reviews Genetics, Vol. 19, Issue 3 https://doi.org/10.1038/nrg.2017.102	journal	December 2017
The histone variant macroH2A suppresses melanoma progression through regulation of CDK8 Kapoor, Avnish; Goldberg, Matthew S.; Cumberland, Lara K. Nature, Vol. 468, Issue 7327 https://doi.org/10.1038/nature09590	journal	December 2010
In Silico Prediction for Regulation of Transcription Factors on Their Shared Target Genes Indicates Relevant Clinical Implications in a Breast Cancer Population Liu, Li-Yu D.; Chang, Li-Yun; Kuo, Wen-Hung Cancer Informatics, Vol. 11 https://doi.org/10.4137/cin.s8470	journal	January 2012
Indirect development, transdifferentiation and the macroregulatory evolution of metazoans Arenas-Mena, Cesar Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 365, Issue 1540 https://doi.org/10.1098/rstb.2009.0253	journal	February 2010
The histone chaperone HJURP is a new independent prognostic marker for luminal A breast carcinoma Montes de Oca, Rocío; Gurard-Levin, Zachary A.; Berger, Frédérique Molecular Oncology, Vol. 9, Issue 3 https://doi.org/10.1016/j.molonc.2014.11.002	journal	November 2014
MacroH2A1 downregulation enhances the stem-like properties of bladder cancer cells by transactivation of Lin28B Park, S-J; Shim, J. W.; Park, H. S. Oncogene, Vol. 35, Issue 10 https://doi.org/10.1038/onc.2015.187	journal	June 2015
Epigenetic Modifications as Biomarkers of Tumor Development, Therapy Response, and Recurrence across the Cancer Care Continuum Thomas, Margaret; Marcato, Paola Cancers, Vol. 10, Issue 4 https://doi.org/10.3390/cancers10040101	journal	April 2018
H2A.Z.2.2 is an alternatively spliced histone H2A.Z variant that causes severe nucleosome destabilization Bönisch, Clemens; Schneider, Katrin; Pünzeler, Sebastian Nucleic Acids Research, Vol. 40, Issue 13 https://doi.org/10.1093/nar/gks267	journal	March 2012
PBX1 Genomic Pioneer Function Drives ERα Signaling Underlying Progression in Breast Cancer Magnani, Luca; Ballantyne, Elizabeth B.; Zhang, Xiaoyang PLoS Genetics, Vol. 7, Issue 11 https://doi.org/10.1371/journal.pgen.1002368	journal	November 2011
Variants of core histones and their roles in cell fate decisions, development and cancer Buschbeck, Marcus; Hake, Sandra B. Nature Reviews Molecular Cell Biology, Vol. 18, Issue 5 https://doi.org/10.1038/nrm.2016.166	journal	February 2017
The histone variant H2A.Z is an important regulator of enhancer activity Brunelle, Mylène; Nordell Markovits, Alexei; Rodrigue, Sébastien Nucleic Acids Research https://doi.org/10.1093/nar/gkv825	journal	August 2015

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