NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE85978 Query DataSets for GSE85978
Status Public on Aug 22, 2017
Title Identification of a gene expression signature associated with the metastasis suppressor function of NME1
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Transciptome analysis using a panel of WM793 melanoma cell lines following stable overexpression of wild-type or mutant forms of human NME1
NME1 is well known for its ability to suppress melanoma metastasis, however the means by which NME1 accomplishes this remains controversial. Herein, we utilized a bioinformatics approach to systematically identify effector genes of NME1’s metastasis suppressor function by tracking genes regulated by wild-type NME1 but not by metastasis suppressor deficient mutants of NME1. This approach identified a number of novel genes, such as ALDOC, CXCL11, LRP1b and XAGE1 as well as known targets of NME1 such as NETO2. Our NME1-mediated Metastasis Suppressor Signature (MSS) was capable of identifying subpopulations of metastatic melanoma patients with prolonged progression free survival. Interestingly, when patients were clustered by an extension of the MSS, two populations of metastatic melanoma patients were identified with significantly lowered overall and progression free survival times. Together, these data demonstrate that NMEl is a powerful tool for identifying genes that both promote and inhibit melanoma metastasis.
 
Overall design Analysis of WM793 (parent) and NME1 (wild-type and 3 mutant (E5A, K12Q, P96S) constructs) overexpressing cell lines using the Affymetrix GeneChip Human Exon 1.0 ST Arrays. 20 arrays were run across the 5 cell lines with 4 technical replicates performed for each cell line. Array data was processed and normalized in R using the RMA method.
 
Contributor(s) McCorkle JR, Leonard MK, Novak M, Zhang Q, Blalock EX, Shetty A, Mahurkar AA, Kaetzel DM
Citation(s) 29058705
Submission date Aug 24, 2016
Last update date Feb 18, 2019
Contact name Joseph Robert McCorkle
E-mail(s) rob.mccorkle@uky.edu
Organization name University of Kentucky
Street address 760 Press Ave.
City Lexington
State/province KY
ZIP/Postal code 40536
Country USA
 
Platforms (1)
GPL5175 [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [transcript (gene) version]
Samples (20)
GSM2290062 WM793-Parent_1
GSM2290063 WM793-Parent_2
GSM2290064 WM793-Parent_3
Relations
BioProject PRJNA339922

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
GSE85978_RAW.tar 433.2 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap