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Sample GSM860276 Query DataSets for GSM860276
Status Public on Jul 01, 2014
Title Blood SCD patientA0089
Sample type RNA
 
Source name whole blood
Organism Homo sapiens
Characteristics age (years): 4.5
clinical status: E
severity score: 0.183
Sex: M
hb phenotype: SC
white blood cells: 8
mean corpuscular volume: 68.2
red blood cells: 5
genotypic pc1: -0.1082
genotypic pc2: 0.0196
Extracted molecule total RNA
Extraction protocol RNA was extracted from whole blood collected in Tempus tubes using the Tempus Spin RNA Isolation kit (Applied Biosystems). Total RNA was then globin-mRNA-depleted using GlobinClear kit (Ambion). Quality control was performed with Agilent Bioanalyser.
Label Biotin
Label protocol Biotinylated cRNA were prepared with the Illumina TotalPrep RNA Amplification kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Sample70
globin mRNA-depleted total RNA
Data processing The data was log2 transfromed and normalised using quantile normalisation with JMP Genomics
 
Submission date Jan 11, 2012
Last update date Jul 01, 2014
Contact name Jacklyn Quinlan
E-mail(s) jacki.quinlan@gmail.com
Phone 514-345-4931
Organization name CHU Ste-Justine Hospital
Department Pediatrics
Lab Philip Awadalla
Street address 3175 Cote Ste-Catherine
City Montreal
State/province Qc
ZIP/Postal code H3T 1C5
Country Canada
 
Platform ID GPL10558
Series (1)
GSE35007 The genomic architecture of sickle cell disease in children from West Africa

Data table header descriptions
ID_REF
VALUE quantile normalized signal
A0089Detection Pval

Data table
ID_REF VALUE A0089Detection Pval
ILMN_1762337 6.91662668 0.3038961
ILMN_2055271 7.32788774 0.00909091
ILMN_1736007 6.73322129 0.625974
ILMN_2383229 6.93102352 0.2818182
ILMN_1806310 7.05626606 0.0948052
ILMN_1779670 6.68154734 0.7116883
ILMN_1653355 7.30703029 0.01038961
ILMN_1717783 6.41924434 0.9701298
ILMN_1705025 7.0385491 0.1155844
ILMN_1814316 6.71341153 0.6610389
ILMN_2359168 6.59969236 0.8298701
ILMN_1731507 6.544226 0.8909091
ILMN_1787689 6.78030793 0.5493507
ILMN_3241953 7.14492946 0.04285714
ILMN_1745607 6.54918728 0.8831169
ILMN_2136495 6.76177258 0.5818182
ILMN_1668111 7.19044071 0.03116883
ILMN_2295559 6.86255158 0.3896104
ILMN_1735045 8.11385162 0.0012987
ILMN_1680754 6.68746018 0.7077922

Total number of rows: 47323

Table truncated, full table size 1555 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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