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Sample GSM1276029 Query DataSets for GSM1276029
Status Public on Oct 20, 2014
Title ND 4
Sample type RNA
 
Source name the patient in the first edisode of MDD
Organism Homo sapiens
Characteristics blood: peripheral blood
average age: 43.17 ± 8.66
gender: 5 female/5 male
Treatment protocol Mononuclear cells were isolated within 1 h by density-gradient centrifugation and stored in Trizol at − 80 °C.
Growth protocol Peripheral blood (10 ml) was obtained just before breakfast .
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIZol according to the manufacturer's instructions.
Label biotin
Label protocol Labeling of fragmented ds cDNA according to the standard Affymetrix protocol (GeneChip® Eukaryotic Double Strand Whole Transcript Protocol, Affymetrix).
 
Hybridization protocol 20 ug of Fragmented-labeled ds DNA were hybridized for for 16 hr at 45°C . Wash/Stain arrays with Affymetrix® Hybridization, Wash and Stain Kit using the FS450_0001 fluidics protocol.
Scan protocol After hybridization and washing, processed slides were scanned with the Affymetrix GeneChip Scanner 3000 7G (Affymetrix, Santa Clara, CA).
Data processing All gene level files were imported into Affymetrix Expression Console (version 1.2.1) and normalized by the quantile method. Combat Software was used to adjust the normalized intensity to remove batch effects.
 
Submission date Nov 27, 2013
Last update date Oct 20, 2014
Contact name Zhifen Liu
E-mail(s) liuzhifen5518@163.com
Phone +863514639641
Organization name 1st hospital of Shanxi Medical University
Department Psychiatry
Street address 85 Jiefang South Road
City TaiYuan
State/province Shanxi
ZIP/Postal code 030001
Country China
 
Platform ID GPL17976
Series (1)
GSE52790 lncRNA and mRNA expression data in peripheral blood sampled from MDD patients

Data table header descriptions
ID_REF
VALUE Combat Software-normalized data

Data table
ID_REF VALUE
TC0100001 4.56922
TC0100002 5.22666
TC0100003 7.88859
TC0100004 3.75169
TC0100005 2.92501
TC0100006 9.92628
TC0100008 2.89505
TC0100009 2.17195
TC0100010 0.84365
TC0100011 8.55473
TC0100012 7.05138
TC0100013 5.13078
TC0100014 4.55266
TC0100015 5.12041
TC0100016 4.56815
TC0100017 5.06721
TC0100018 1.76464
TC0100019 5.62694
TC0100020 5.45066
TC0100021 5.82659

Total number of rows: 74057

Table truncated, full table size 1755 Kbytes.




Supplementary file Size Download File type/resource
GSM1276029_ND98_hGlue_3_0_v1_.CEL.gz 22.3 Mb (ftp)(http) CEL
GSM1276029_ND98_hGlue_3_0_v1_.rma-gene-default.chp.gz 318.5 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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