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Series GSE100705 Query DataSets for GSE100705
Status Public on Oct 01, 2017
Title Trichostatin A preferentially reverses the upregulation of gene expression levels induced by gain of chromosome 7 in colorectal cancer cell lines
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Epithelial cancers are defined by a tumor-specific distribution of chromosomal aneuploidies that are maintained when cells metastasize and are conserved in cell lines derived from primary tumors. Correlations between genomic copy number and gene expression have been observed for different tumors including, colorectal (CRC), breast and pancreatic cancer. These ploidy-driven transcriptional deregulations are characterized by low-level expression changes of most genes on the affected chromosomes. The emergence of these aberrations at an early stage of tumorigenesis and the strong selection for the maintenance of these aneuploidies suggests that aneuploidy-dependent transcriptional deregulations might contribute to cellular transformation and maintenance of the malignant phenotype. The histone deacetylase inhibitor (HDACi) Trichostatin A (TSA) has anticancer effects and is well known to lead to large scale gene expression changes. Here we assessed if TSA could disrupt the aneuploidy-driven gene expression in the aneuploid colon cancer cell line SW480 and the artificially generated aneuploid cell line DLD-1+7. We found that TSA increases transcriptional activity throughout the genome, yet inhibits aneuploidy-induced gene expression changes on chromosome 7. Among the TSA affected genes on chromosome 7 we identified potential CRC oncogenes. These experiments represent the first attempt to explain how histone acetylation affects aneuploidy-driven gene expression changes.
 
Overall design 6 samples are compared in total. There are 3-5 replicates per condition. Conditions are: 1. DLD1; 2. DLD1 + TSA; 3. DLD1+chr7; 4. DLD1+chr7 + TSA; 5. SW480; 6. SW480 + TSA
 
Contributor(s) Buishand FO, Cardin E, Hu Y, Ried T
Citation(s) 28940826
Submission date Jun 30, 2017
Last update date Jul 25, 2021
Contact name Yue Hu
E-mail(s) yue.hu@nih.gov
Organization name NCI
Department Genetic
Lab Thomas Ried
Street address 50 South Drive, Bldg. 50, Rm. 1408
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL13497 Agilent-026652 Whole Human Genome Microarray 4x44K v2 (Probe Name version)
Samples (26)
GSM2691780 DLD1_Control_rep1
GSM2691781 DLD1_Control_rep2
GSM2691782 DLD1_Control_rep3
Relations
BioProject PRJNA392696

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
GSE100705_RAW.tar 56.4 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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