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Series GSE16572 Query DataSets for GSE16572
Status Public on Jan 28, 2010
Title Gene expression analyses of mir-182 knockdown in ovarian clear cell cancer cell line
Organism Homo sapiens
Experiment type Expression profiling by array
Summary A variety of human cancers demonstrate alterations in microRNA expression. We hypothesized that regulatory defects in microRNAs play a central early role in organizing the molecular changes involved in ovarian cancer (OvCa). Using both gene arrays and deep sequencing, we comprehensively profiled mRNA and microRNA expression, respectively, in human clear cell epithelial OvCa cell lines and short-term primary cultures of normal ovarian surface epithelium. We expected that over-expression of a specific microRNA would lead to lower expression of its mRNA targets, and under-expression of a specific microRNA would lead to higher expression of its target genes. Using our expression data in conjunction with established in silico algorithms, we found putative microRNA:mRNA functional pairs. Furthermore, gene expression profiles were taken of clear cell cultures having functional knockdown or over-expression of specific microRNAs of interest. Knockdown of mir-182 (found over-expressed in clear cell OvCa) resulted in up-regulation in vitro of a significant number of the in silico predicted mir-182 target genes that were normally under-expressed in OvCa.

Keywords: two group comparison; gene expression profiling
 
Overall design We used miRNA mimics to knockdown expression of mir-182, which was over-expressed (fold>8) in OvCa clear cell cultures versus NOSE, using the clear cell line ES2. After 48 hours of mimic treatment, we profiled for gene expression both cells with mir-182 knockdown and cells with mimic control (having minimal sequence identity with all human miRNAs).
 
Contributor(s) Creighton C, Matzuk M, Gunaratne P, Anderson M, Nagaraja A
Citation(s) 20081105
Submission date Jun 12, 2009
Last update date Aug 16, 2018
Contact name Chad Creighton
E-mail(s) creighto@bcm.tmc.edu
Organization name Baylor College of Medicine
Department Biostatistics, Ducan Cancer Center
Street address One Baylor Plaza, Mail Stop: BCM305
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platforms (1)
GPL6947 Illumina HumanHT-12 V3.0 expression beadchip
Samples (6)
GSM416692 hsa-mir-182 inhibitor_17-1
GSM416693 hsa-mir-182 inhibitor_17-2
GSM416694 hsa-mir-182 inhibitor_17-3
This SubSeries is part of SuperSeries:
GSE16574 Gene expression analyses of putative miRNA targets in ovarian clear cell cancer cell lines
Relations
BioProject PRJNA122761

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE16572_RAW.tar 10.4 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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