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Series GSE39764 Query DataSets for GSE39764
Status Public on Mar 15, 2013
Title Gene profiles of pathway interference downstream neurofibromin signaling
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Malignant peripheral nerve sheath tumor (MPNST) is a type of soft tissue sarcoma that occurs in carriers of mutations in the neurofibromatosis type I gene (Nf1) as well as sporadically. Plexiform neurofibromas in NF1 patients have a significant risk of developing into MPNSTs leading to increased morbidity and mortality from this syndrome. Surgery is the primary intervention but it is not always effective due to the tendency of MPNSTs to infiltrate the surrounding tissue or grow in an inoperable location. Neurofibromin, the protein coded by the Nf1 gene, functions as a GTPase activating protein (GAP) whose mutation leads to constitutive activation of RAS and mitogen-activated protein kinase (MAPK) signaling in NF1 patients’ tumors. However, therapeutic targeting of RAS and MAPK have had limited success (Kalamarides, et al., 2012).  In this study, we modulated NRAS, MEK1/2 and neurofibromin levels in MPNST cell lines and determined the global gene expression changes that were associated with each experimental condition. Furthermore, gene expression changes due to neurofibromin deficiency but independent of NRAS and MEK1/2 regulation were characterized for the first time in MPNST cell lines.
 
Overall design There are total 4 comparison scenarios. Each scenario has two different samples to compare and each sample has three replicates. Comparison 1: ST88-14 cell line versus normal human schwann cell; comparison 2: U0126 treated ST88-14 versus DMSO treat ST88-14 as control; comparison 3: siNRAS treated ST88-14 versus scrambled control treated ST88-14 cell line; comparison 4: siNf1 treated STS26T cell line versus scrambled control RNA treated STS26T cell line.
 
Contributor(s) Sun D, Haddad R, Tainsky M
Citation(s) 23423222
Submission date Jul 31, 2012
Last update date Feb 22, 2018
Contact name Michael A Tainsky
E-mail(s) tainskym@karmanos.org
Organization name Wayne State University
Department Center for Molecular Medicine and Genetics
Street address 110 E Warren Room 311
City Detroit
State/province MI
ZIP/Postal code 48201
Country USA
 
Platforms (1)
GPL4133 Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version)
Samples (24)
GSM978849 Normal Human Schwann Cell Replicate 1
GSM978850 Normal Human Schwann Cell Replicate 2
GSM978851 Normal Human Schwann Cell Replicate 3
Relations
BioProject PRJNA171610

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
GSE39764_RAW.tar 316.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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