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Sample GSM1689812 Query DataSets for GSM1689812
Status Public on May 21, 2015
Title PTPRZ1 knocking-down glioblastoma stem cells
Sample type RNA
 
Source name PTPRZ1 knocking-down 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 PrimeView Affymetrix Human Gene Expression Array 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 PTPRZ1 knocking down cells with disrupting 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 GPL15207
Series (2)
GSE68995 Gene expression profiles of PTPRZ1-knocking-down human glioblastoma stem cells [PrimeView]
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 292.1721 P
AFFX-BioB-M_at 386.6481 P
AFFX-BioB-3_at 316.4272 P
AFFX-BioC-5_at 550.6817 P
AFFX-BioC-3_at 803.705 P
AFFX-BioDn-5_at 1527.828 P
AFFX-BioDn-3_at 3889.454 P
AFFX-CreX-5_at 9031.088 P
AFFX-CreX-3_at 11526.91 P
AFFX-DapX-5_at 430.9866 P
AFFX-DapX-M_at 878.0349 P
AFFX-DapX-3_at 1443.781 P
AFFX-LysX-5_at 103.1373 P
AFFX-LysX-M_at 109.9213 P
AFFX-LysX-3_at 207.0969 P
AFFX-PheX-5_at 147.0362 P
AFFX-PheX-M_at 174.2884 P
AFFX-PheX-3_at 192.4853 P
AFFX-ThrX-5_at 236.7016 P
AFFX-ThrX-M_at 306.4154 P

Total number of rows: 49395

Table truncated, full table size 1178 Kbytes.




Supplementary file Size Download File type/resource
GSM1689812_121220-121272A_KD_PrimeView_.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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