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Series GSE36863 Query DataSets for GSE36863
Status Public on Mar 29, 2012
Title DEEP SEQUENCING OF MODELS OF BREAST DUCTAL CARCINOMA IN SITU REVEALS ALDH5A1 AS A NOVEL POTENTIAL THERAPEUTIC TARGET
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We attempted to identify alterations in gene expression that occur during the progression from normal breast to ductal carcinoma in situ (DCIS) with the aim to elucidate significant genes and pathways underlying the premalignant transformation. To determine the expression changes that are common to multiple DCIS models (MCF10.DCIS, SUM102 and SUM225) and normal mammary epithelial cells (MCF10A), we grew the cells in three dimensional overlay culture with reconstituted basement membrane and used the extracted RNA for 76 cycles of deep sequencing (mRNA-Seq) using Illumina Genome Analyzer GAIIx. Analysis of mRNA-Seq results showed 295 consistently differentially expressed transcripts in DCIS models as compared to MCF10A. These differentially expressed genes are associated with a number of signaling pathways such as integrin, fibroblast growth factor and TGFß signaling. Many differentially expressed transcripts in DCIS were found to be involved in cell-cell signaling, cell-cell adhesion and cell proliferation. We further investigated ALDH5A1 gene that encodes for the enzyme, aldehyde dehydrogenase 5A1, which is involved in glutamate metabolism. Further, inhibition of ALDH5A1 with different pharmacological drugs resulted in significant inhibition of cell growth and proliferation in the DCIS models.
 
Overall design Four cell lines examined: normal mammary epithelial cell line (one sample) and three ductal carcinoma in situ cell lines (three samples). Each sample has two duplicates
 
Contributor(s) Kaur H, Mao S, Li Q, Sameni M, Krawetz SA, Sloane BF, Mattingly RR
Citation(s) 23236365
Submission date Mar 27, 2012
Last update date May 15, 2019
Contact name RAYMOND R MATTINGLY
E-mail(s) ae8291@wayne.edu
Phone 313-577-6022
Organization name Wayne State University
Department Pharmacology
Street address 540 East Canfield
City Detroit
State/province MI
ZIP/Postal code 48201
Country USA
 
Platforms (1)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
Samples (4)
GSM903303 MCF10A
GSM903304 DCIS
GSM903305 Sum102
Relations
SRA SRP011974
BioProject PRJNA157137

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Supplementary file Size Download File type/resource
GSE36863_RAW.tar 261.7 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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