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Sample GSM1689811 Query DataSets for GSM1689811
Status Public on May 21, 2015
Title Control glioblastoma stem cells
Sample type RNA
 
Source name Control glioblastoma stem cells
Organism Homo sapiens
Characteristics cell type: glioblastoma stem cells
Extracted molecule total RNA
Extraction protocol The PTPRZ1 knocking-down glioblastoma stem cells and control cells were used for RNA isolatation using Primescript RT Master Mix (Takara) according to the manufacture's protocol.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 20ug total RNA (Cat. AM1792, Ambion).
 
Hybridization protocol Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 with constant rotation at the speed of 60 rpm. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Control cells with PTPRZ1 knocking-down efficiency confirmed by qRT-PCR
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method, following the manufacture's protocol. Differentially expressed genes were identified when the gene expression ratio between the control group and KD group was more than 2-fold.
 
Submission date May 18, 2015
Last update date May 21, 2015
Contact name Yu Shi
E-mail(s) cadet_toutou@126.com
Organization name Institute of Pathology and Southwest Cancer Center
Department Southwest Hospital
Lab Key Laboratory of Tumor Immunopathology of Ministry of Education of China
Street address Gao-tan Yan Street
City Chongqing
State/province Chongqing
ZIP/Postal code 400038
Country China
 
Platform ID GPL570
Series (2)
GSE68994 PTPRZ1 disruption-mediated gene expression changes in human glioblastoma stem cells [HG-U133_Plus_2]
GSE69081 Gene expression profiles of PTPRZ1-knocking-down human glioblastoma stem cells

Data table header descriptions
ID_REF
VALUE MAS 5.0 signal
ABS_CALL

Data table
ID_REF VALUE ABS_CALL
AFFX-BioB-5_at 406.39 P
AFFX-BioB-M_at 532.24 P
AFFX-BioB-3_at 547.43 P
AFFX-BioC-5_at 997.44 P
AFFX-BioC-3_at 1276.36 P
AFFX-BioDn-5_at 1848.9 P
AFFX-BioDn-3_at 3544.27 P
AFFX-CreX-5_at 7924.36 P
AFFX-CreX-3_at 9042.54 P
AFFX-DapX-5_at 606.35 P
AFFX-DapX-M_at 1061.07 P
AFFX-DapX-3_at 767.26 P
AFFX-LysX-5_at 62.97 P
AFFX-LysX-M_at 140.29 P
AFFX-LysX-3_at 188.09 P
AFFX-PheX-5_at 145.9 P
AFFX-PheX-M_at 144.44 P
AFFX-PheX-3_at 183.1 P
AFFX-ThrX-5_at 262.39 P
AFFX-ThrX-M_at 219.53 P

Total number of rows: 54675

Table truncated, full table size 1018 Kbytes.




Supplementary file Size Download File type/resource
GSM1689811_130226-121272A_MOCK_HG-U133_Plus_2_.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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