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Sample GSM2211283 Query DataSets for GSM2211283
Status Public on Jun 01, 2018
Title GBM primary cultures (p<2) NR03
Sample type RNA
Source name GBM primary cultures (p<2), MES
Organism Homo sapiens
Characteristics cell type: glioblastoma multiforme (GBM) primary culture
passage: <2
molecular subtype: MES
Treatment protocol No treatment.
Growth protocol Samples were grown in defined media DMEM/F12 supplemented with penicillin, streptomycin, glutamine, N2, B27, EGF, FGF and heparin.
Extracted molecule total RNA
Extraction protocol All samples were stored at -80C. Total RNA extraction using RNeasy mini kit (Qiagen) according to the manufacturer's instructions. The quality of RNA was controlled by an Agilent 2100 Bioanalyser. RNAs were qualified if the 28S/18S ratio was more than 1.5.
Label Cy3
Label protocol 3 ug of total RNA of each sample as starting material. In vitro transcription with Enzo BioArray High Yield RNA Transcript Labeling kit; T7 RNA polymerase; one-cycle target labeling protocol; one-cycle EukGE-WS2v5 target labeling protocol.
Hybridization protocol 20ug cRNA per hybridization; Incubation under rotation (60 rpm); GeneChip Fluidics Station 400; Agilent SurePrintG3 Human GE 8x60.
Scan protocol The scanned images (Agilent Technologies Scanner G2505C) were analyzed with Feature Extraction Software ( using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
Description NR03_Mesenchymal_957_2_4
Data processing The raw signals of each probe for all the arrays were normalized against a virtual median chip (median raw intensity per row) using a local weighted scattered plot smoother analysis.
Submission date Jun 22, 2016
Last update date Jun 01, 2018
Contact name Raluca TEUSAN
Organization name Inserm
Street address IRS-UN - 8 quai Moncousu - BP 70721
City Nantes
ZIP/Postal code 44007
Country France
Platform ID GPL13607
Series (1)
GSE83626 Molecular classification of primary cultures of glioblastoma multiforme

Data table header descriptions
VALUE Lowess normalized signal intensity (log2 median signal)

Data table
1 11.08975962
2 3.401197382
3 3.496507561
4 5.645446898
5 6.838405201
6 3.63758616
7 8.006367568
8 6.824917001
9 3.481240089
10 3.688879454
11 3.555348061
12 7.18349128
13 6.499787041
14 5.638354669
15 7.827240902
16 3.36729583
17 5.017279837
18 3.496507561
19 4.795790546
20 6.192362489

Total number of rows: 62976

Table truncated, full table size 1090 Kbytes.

Supplementary file Size Download File type/resource
GSM2211283_957_2_4.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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