Transcriptomics,Genomics

Dataset Information

32

Identification of JMJD1A and JMJD2B Target Genes in Hypoxic Ovarian Cancer Cells


ABSTRACT: The Hypoxia-Inducible Factors induce the expression of the histone demethylases JMJD1A (KDM3A) and JMJD2B (KDM4B), linking the hypoxic tumor microenvironment to epigenetic mechanisms that may foster tumor progression. Using transcript profiling, we have identified genes that are regulated by JMJD1A and JMJD2B in both normoxic and hypoxic conditions in SKOV3ip.1 ovarian cancer cells. This dataset includes expression data obtained from exposing ovarian cancer cells to hypoxia in combination with siRNA-mediated knockdown of the hypoxia-inducible histone demethylases JMJD1A and JMJD2B. These data were used to both identify functional overlap between each histone demethylase, as well as identify effectors of tumor growth mediated by JMJD2B (KDM4B) in normoxia and hypoxia. Overall design: 18 samples were analyzed. The log2-transformed normalized signal intensities were used for downstream pairwise comparisons (using Partek Genomic Suite): SiControl-Normoxia>SiD1A-Normoxia; SiD1A-Normoxia>SiControl-Normoxia; SiControl-Normoxia>SiD2B-Normoxia; SiD2B-Normoxia>SiControl-Normoxia; SiControl-Hypoxia>SiControl-Normoxia; SiControl-Normoxia>SiControl-Hypoxia; SiControl-Hypoxia>SiD1A-Hypoxia; SiD1A-Hypoxia>SiControl-Hypoxia; SiControl-Hypoxia>SiD2B-Hypoxia; SiD2B-Hypoxia>SiControl-Hypoxia.

INSTRUMENT(S): [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [transcript (gene) version]

SUBMITTER: Adam J Krieg  

PROVIDER: GSE66894 | GEO | 2017-03-13

SECONDARY ACCESSION(S): PRJNA278275

REPOSITORIES: GEO

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Publications

The histone demethylase KDM4B regulates peritoneal seeding of ovarian cancer.

Wilson C C   Qiu L L   Hong Y Y   Karnik T T   Tadros G G   Mau B B   Ma T T   Mu Y Y   New J J   Louie R J RJ   Gunewardena S S   Godwin A K AK   Tawfik O W OW   Chien J J   Roby K F KF   Krieg A J AJ  

Oncogene 20161121 18


Epithelial ovarian cancer (EOC) has poor prognosis and rapid recurrence because of widespread dissemination of peritoneal metastases at diagnosis. Multiple pathways contribute to the aggressiveness of ovarian cancer, including hypoxic signaling mechanisms. In this study, we have determined that the hypoxia-inducible histone demethylase KDM4B is expressed in ∼60% of EOC tumors assayed, including primary and matched metastatic tumors. Expression of KDM4B in tumors is positively correlated with exp  ...[more]

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