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Sample GSM937767 Query DataSets for GSM937767
Status Public on Dec 09, 2014
Title GAL_3014_V1R
Sample type RNA
Source name Whole blood sample, PAH
Organism Homo sapiens
Characteristics disease state: pulmonary arterial hypertension (PAH)
tissue: whole blood
gender: female
Treatment protocol Blood was collected in a PAXgene® tube, incubated at room temperature for 4h for RNA stabilization and then stored at -80°C.
Extracted molecule total RNA
Extraction protocol RNA was extracted from whole blood using the PAXgeneTM Blood RNA System Kit (PreAnalytix, CA, USA) following the manufacturer's recommendations. RNA was quantified using a NanoDrop ND-1000 spectrophotometer, and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Label Cy3
Label protocol The cRNA labeling was performed according to Protocol from Agilent Technologies Inc. (Santa Clara, CA) using the Agilent Quick Amp Labeling Kit (Agilent Technologies, Palo Alto, CA) following the two-colour manufacturer's protocol. Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
Hybridization protocol cRNA samples were hybridized to an Agilent Technologies Human Gene Expression 8x60K Microarray during 17 hours at 65°C in a rotating hybridization oven (Agilent Technologies). The hybridization slides were washed, stabilized, dried, and immediately scanned.
Scan protocol Scanned with an Agilent Technologies Microarray Scanner using default parameters (protocol GE2_107_Sep09 and Grid: 028004_D_F_20110325). Each sample represents one channel of a dual-channel array.
Description GAL_3014_V1R_13292_1_1

This Sample represents one channel of a dual-channel array.
Data processing Data extraction of median feature intensity without background subtraction was peformed with Feature Extraction software v10.7.1.1 (gMedianSignal or rMedianSignal column) (Agilent Technologies). In order to remove systemic signal intensity bias between each array, median feature intensity were normalized with the function lowess (Locally weighted scatterplot smoothing) method, and then spots with half of the samples exhibiting signal less than the mean of all median signals were removed (threshold: 90.83). 30,146 spots were kept out of 58,717.
Submission date May 25, 2012
Last update date Dec 09, 2014
Contact name Richard Danger
Phone +33 2 40 08 75 65
Organization name CHU Nantes - INSERM- Nantes Universite
Department U1064
Street address 30 Boulevard Jean Monnet
City Nantes
ZIP/Postal code 44035
Country France
Platform ID GPL13607
Series (1)
GSE38267 Gene expression profiling in blood of patients with chronic respiratory failure

Data table header descriptions
VALUE Normalized signal intensity

Data table
1 null
2 null
3 null
4 217.36
5 null
6 null
7 259.39
8 183886.05
9 null
10 null
11 null
12 889.22
13 435.99
14 10585.32
15 null
16 null
17 null
18 null
19 null
20 229.41

Total number of rows: 62976

Table truncated, full table size 726 Kbytes.

Supplementary file Size Download File type/resource
GSM937767_US82400123_252800413292_S01_GE2_107_Sep09_1_1.txt.gz 21.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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