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Sample GSM483317 Query DataSets for GSM483317
Status Public on Mar 13, 2010
Title MDS patient 21
Sample type RNA
 
Source name Bone marrow CD34+ cells
Organism Homo sapiens
Characteristics tissue type: bone marrow
cell type: CD34+ hematopoietic stem cells (HSC)
disease status: myelodysplastic syndromes (MDS)
disease subtype: refractory anemia (RA)
genome/variation: del5q
Treatment protocol Mononuclear cells were separated using Histopaque density gradient centrifugation, labelled with CD34 MicroBeads, and then CD34+ cells were isolated using MACS magnetic cell separation columns according to the manufacturer’s recommendations.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIZOL following the manufacturer’s protocol
Label Biotin
Label protocol 50 ng of total RNA were amplified and biotin-labelled with the Two-Cycle cDNA Synthesis and the Two-Cycle Target Labelling and Control Reagent packages according to the standard Affymetrix protocol.
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
Description Gene expression data from bone marrow CD34+ cells
Data processing Affymetrix CEL files were pre-processed using Robust MultiChip Analysis (RMA) using GeneSpring 7.3.1.
 
Submission date Dec 11, 2009
Last update date Mar 13, 2010
Contact name Andrea Pellagatti
E-mail(s) [email protected]
Phone 00441865222911
Organization name University of Oxford
Department NDCLS, RDM
Lab LLR Molecular Haematology Unit
Street address John Radcliffe Hospital
City Oxford
ZIP/Postal code OX3 9DU
Country United Kingdom
 
Platform ID GPL570
Series (1)
GSE19429 Expression data from bone marrow CD34+ cells of MDS patients and healthy controls

Data table header descriptions
ID_REF
VALUE RMA normalized signal intensity

Data table
ID_REF VALUE
1007_s_at 113.17877
1053_at 157.52461
117_at 24.179459
121_at 151.87857
1255_g_at 7.6749477
1294_at 208.38055
1316_at 27.639828
1320_at 11.468805
1405_i_at 229.39137
1431_at 9.167581
1438_at 21.360954
1487_at 71.46075
1494_f_at 31.75775
1552256_a_at 143.08066
1552257_a_at 208.94809
1552258_at 65.31232
1552261_at 17.382542
1552263_at 116.190254
1552264_a_at 119.91969
1552266_at 13.1179285

Total number of rows: 54675

Table truncated, full table size 1092 Kbytes.




Supplementary file Size Download File type/resource
GSM483317.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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