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Sample GSM860408 Query DataSets for GSM860408
Status Public on Jul 01, 2014
Title Blood SCD patientA0330
Sample type RNA
 
Source name whole blood
Organism Homo sapiens
Characteristics age (years): 3.8
clinical status: FU
severity score: 0.378
Sex: M
hb phenotype: SS
white blood cells: 14
mean corpuscular volume: 74.8
red blood cells: 4
genotypic pc1: -0.0457
genotypic pc2: -0.0267
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 Sample202
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
A0330Detection Pval

Data table
ID_REF VALUE A0330Detection Pval
ILMN_1762337 6.89281054 0.3376623
ILMN_2055271 7.14442808 0.05714286
ILMN_1736007 6.6323596 0.761039
ILMN_2383229 6.80550533 0.5051948
ILMN_1806310 6.62314421 0.774026
ILMN_1779670 6.59240845 0.8038961
ILMN_1653355 6.97932716 0.1909091
ILMN_1717783 6.46428572 0.9324675
ILMN_1705025 7.02490148 0.1441558
ILMN_1814316 6.86159783 0.4
ILMN_2359168 6.61944798 0.7779221
ILMN_1731507 6.37113078 0.9909091
ILMN_1787689 6.6651978 0.7207792
ILMN_3241953 7.14634065 0.05584415
ILMN_1745607 6.64373261 0.7454545
ILMN_2136495 6.31751462 0.9974026
ILMN_1668111 7.17294622 0.04025974
ILMN_2295559 6.75505114 0.6
ILMN_1735045 6.7074155 0.6675324
ILMN_1680754 7.13214458 0.06103896

Total number of rows: 47323

Table truncated, full table size 1544 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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