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Series GSE18182 Query DataSets for GSE18182
Status Public on Feb 08, 2011
Title Expression profile of lung adenocarcinoma, A549 cells following targeted depletion of non metastatic 2 (NME2/NM23 H2)
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Non-metastatic 2 (NME2) is an established metastases suppressor in multiple human cancer types. However, the molecular mechanisms of NME2 action remain insufficiently resolved. We recently validated the transcription regulatory activity of NME2 with respect to control of proto-oncogene c-MYC expression. We hypothesized that large scale transcriptional potential of NME2 may be at the core of metastases suppression by NME2. Using a combination of high throughput genomic assays such as chromatin immunoprecipitation coupled to promoter array hybridization (ChIP-chip) and gene expression profiling, we characterized the transcriptional roles of NME2. Specifically, we found a set of NME2 target genes which changed expression upon selective depletion of NME2 in a lung cancer cell line, A549. The analysis of gene expression suggested control of various biological pathways esp. cell adhesion and apoptosis by NME2 target genes which could be important in regulation of metastases.
Overall design For transcriptome analysis, total RNA was purified from A549 cells transiently silenced for NME2 (siRNA duplex against NME2/ NM23 H2(Santa Cruz)) or transfected with control siRNA duplexes. Isolated RNA was converted to cDNA, transcribed in vitro to synthesize biotinylated cRNA, and hybridized to Affymetrix HG-U133 plus 2.0 GeneChip oligonucleotide microarrays, according to manufacturer’s instructions. Three biological replicates were averaged and significance analysis performed using GCOS (P <0.005 of fold change).
Contributor(s) Thakur RK, Kumar A, Basundra R, Yadav VK, Chowdhury S
Citation(s) 25081206, 25249619
Submission date Sep 21, 2009
Last update date Mar 25, 2019
Contact name Vinod Kumar Yadav
Organization name IGIB
Department Bioinformatics
Street address Mall Road
City Delhi
State/province Delhi
ZIP/Postal code 110009
Country India
Platforms (1)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (6)
GSM448952 NME2 Depleted A549 cell Replicate1
GSM448953 NME2 depleted A549 cell Replicate2
GSM448954 NME2 Depleted A549 cell Replicate3
This SubSeries is part of SuperSeries:
GSE18285 Characterization of the transcriptional roles of NME2
BioProject PRJNA123489

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
GSE18182_RAW.tar 26.7 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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