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Sample GSM670458 Query DataSets for GSM670458
Status Public on Apr 01, 2011
Title blood_day6_patient5
Sample type RNA
 
Source name Blood
Organism Homo sapiens
Characteristics tissue: blood
patient: 5
gender: male
age: 38
Treatment protocol Blood samples were collected with PAXgene Blood RNA tubes
Growth protocol Peripheral blood cells
Extracted molecule total RNA
Extraction protocol RNA extraction was performed with PAXgene Blood RNA kit according to manufactors instructions, and RNA quality assesed with Bioanalyzer
Label biotin
Label protocol Isolated total RNA was used with GeneChip WT cDNA synthesis and amplification kit (Affymetrix#900672) to produce fragmented single-stranded DNA, which was labeled using terminal labeling kit (Affymetrix#900670) to generate biotin-labeled sense targeted DNA probes.
 
Hybridization protocol Fragmented and labeled DNA (2500ng) was used in 100 µl hybridization cocktail containing control oligonucleotide B2 (50pM) and hybridization controls (Affymetrix #900454), of which 80 µl was hybridised to each chip for 17h in the hybridization oven at 45ºC and rotating at 60rpm. Arrays were processed using Genechip Fluidics Station 450 according to recommended protocols (FS450_007) of double-staining and post-hybridization washes using GeneChip hybridization, wash and stain kit (Affymetrix #900720).
Scan protocol Fluorescent images were captured using gene Array scanner 3000 7G and Affymetrix GeneChip Command Console, v 3.1 software (Affymetrix).
Data processing Raw data were processed using Partek Genomics Suite v. 6.5 to generate RMA normalised intensities. Differential expression was assessed using One-way or Two-way ANOVA in the Partek software dependent of if the samples were paired or not.
 
Submission date Feb 08, 2011
Last update date Apr 01, 2011
Contact name Jan-Erik Berdal
E-mail(s) jan-erik.berdal@hotmail.com
Phone 004748205817
Organization name AHUS
Department medical department
Street address Sykehusvn.
City Lørenskog
State/province Akershus
ZIP/Postal code 1474
Country Norway
 
Platform ID GPL6244
Series (1)
GSE27131 Peripheral blood cells expression data form 7 patients with severe pdm(H1N1) influensa and 7 gender and age matched healthy controls

Data table header descriptions
ID_REF
VALUE RMA-normalised signal intensity from Partek Genomics Suite

Data table
ID_REF VALUE
7892501 0.505676
7892502 2.59235
7892503 2.69199
7892504 7.65402
7892505 1.08876
7892506 2.94432
7892507 4.0077
7892508 4.97585
7892509 9.39234
7892510 1.49256
7892511 2.29814
7892512 5.47675
7892513 2.33171
7892514 7.3544
7892515 7.19499
7892516 4.93179
7892517 5.54502
7892518 1.58473
7892519 3.81434
7892520 7.80695

Total number of rows: 33297

Table truncated, full table size 518 Kbytes.




Supplementary file Size Download File type/resource
GSM670458.CEL.gz 3.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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