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Sample GSM799725 Query DataSets for GSM799725
Status Public on Mar 21, 2012
Title MDD patient 2 before treatment
Sample type RNA
 
Source name MDD patient 2 before treatment
Organism Homo sapiens
Characteristics tissue: peripheral blood
cell type: lymphocytes
disease status: MDD patient
treatment: before treatment
Growth protocol Venous peripheral blood from fasting patients and healthy controls were collected during 7am to 9am.Peripheral blood lymphocytes were separated by Ficoll gradient centrifugation using Ficoll-PlaqueTM Plus (GE, Sweden) according to the manufacturer's protocol.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from lymphocytes using Trizol reagent (Invitrogen) according to the manufacturer's protocol. RNA concentrations were determined by Nanodrop ND-1000 (Nanodrop Technologies, Wilmington, DE). RNA quality was assessed on an Agilent 2100 Bioanalyzer
Label biotin
Label protocol Total RNA were amplified, labeled and purified by using GeneChip 3’IVT Express Kit (Cat#901229, Affymetrix, Santa Clara, CA, US) followed the manufacturer’s instructions to obtain biotin labeled cRNA.
 
Hybridization protocol Array hybridization and wash was performed using GeneChip® Hybridization, Wash and Stain Kit (Cat#900720, Affymetrix, Santa Clara, CA, US)in Hybridization Oven 645 (Cat#00-0331-220V, Affymetrix, Santa Clara, CA, US)and Fluidics Station 450 (Cat#00-0079, Affymetrix, Santa Clara, CA, US) followed the manufacturer’s instructions.
Scan protocol Slides were scanned by GeneChip® Scanner 3000 (Cat#00-00212, Affymetrix, Santa Clara, CA, US) and Command Console Software 3.1 (Affymetrix, Santa Clara, CA, US) with default settings.
Description CB2007224-D2A.CEL
MDD patient 2 before treatment with venlafaxine
Data processing Raw data were normalized by RMA method, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US). The values were log2 transformed.
 
Submission date Sep 21, 2011
Last update date Mar 21, 2012
Contact name Zezhi Li
E-mail(s) lizezhi1981@yahoo.cn
Phone +86 13564648631
Organization name Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, Shanghai, China
Department Division of Mood Disorders
Street address 600 South Wan Ping Road Shanghai 200030, China
City Shanghai
ZIP/Postal code 200030
Country China
 
Platform ID GPL570
Series (1)
GSE32280 Expression data from peripheral blood lymphocytes of major depression, subsyndromal symptomatic depression, and healthy controls

Data table header descriptions
ID_REF
VALUE log2 RMA normalized signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 6.4319577
AFFX-BioB-M_at 6.8005724
AFFX-BioB-3_at 6.5030265
AFFX-BioC-5_at 7.9729395
AFFX-BioC-3_at 8.2948675
AFFX-BioDn-5_at 8.716499
AFFX-BioDn-3_at 10.121044
AFFX-CreX-5_at 11.567919
AFFX-CreX-3_at 12.117992
AFFX-DapX-5_at 6.1121607
AFFX-DapX-M_at 7.2104464
AFFX-DapX-3_at 7.471478
AFFX-LysX-5_at 2.4243696
AFFX-LysX-M_at 4.2202296
AFFX-LysX-3_at 4.919046
AFFX-PheX-5_at 3.323185
AFFX-PheX-M_at 3.7367568
AFFX-PheX-3_at 4.8708987
AFFX-ThrX-5_at 4.6172357
AFFX-ThrX-M_at 4.5884404

Total number of rows: 54675

Table truncated, full table size 1088 Kbytes.




Supplementary file Size Download File type/resource
GSM799725.CEL.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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