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Sample GSM1420490 Query DataSets for GSM1420490
Status Public on Jan 06, 2015
Title MDS133
Sample type RNA
 
Source name Bone marrow CD34+ cells
Organism Homo sapiens
Characteristics tissue: bone marrow
cell type: bone marrow CD34+ cells
disease status: MDS
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 MDS patient 133
Gene expression data from bone marrow CD34+ cells
Data processing Affymetrix CEL files were pre-processed using GC Robust Multi-array Average (GC-RMA)
 
Submission date Jun 25, 2014
Last update date Jan 07, 2015
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)
GSE58831 Gene expression data from bone marrow CD34+ cells of patients with myelodysplastic syndromes (MDS) and healthy controls
Relations
Reanalysis of GSM483429

Data table header descriptions
ID_REF
VALUE log2 GC-RMA signal

Data table
ID_REF VALUE
1007_s_at 5.23466294
1053_at 8.939531998
117_at 3.506935818
121_at 4.994561637
1255_g_at 2.254394055
1294_at 6.637469409
1316_at 3.844917178
1320_at 2.254394055
1405_i_at 8.446592725
1431_at 3.406791136
1438_at 2.254394055
1487_at 5.466355747
1494_f_at 2.254394055
1552256_a_at 7.743845773
1552257_a_at 8.195423369
1552258_at 4.169450494
1552261_at 2.254394055
1552263_at 6.95166847
1552264_a_at 7.221558474
1552266_at 2.390207392

Total number of rows: 54675

Table truncated, full table size 1214 Kbytes.




Supplementary file Size Download File type/resource
GSM1420490_MDS133.CEL.gz 4.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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