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Sample GSM154434 Query DataSets for GSM154434
Status Public on Mar 01, 2007
Title normal plasma cells (NPC 389)
Sample type RNA
Source name Bone marrow
Organism Homo sapiens
Characteristics PC from healthy donors, isolated using CD38-APC.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from purified cell
populations using the RNeasy Mini Kit (Qiagen, Valencia, CA,
USA) according to the manufacturer’s instructions. The RNA
integrity was assessed using Agilent 2100 Bioanalyzer (Agilent,
Palo Alto, CA, USA).
Label protocol Labeling were performed according to protocols from Affymetrix.
Briefly,100 ng of total RNA was amplified and labeled using the
GeneChip two-cycle cDNA synthesis kit and GeneChip IVT
labeling kit (Affymetrix Inc., Santa Clara, CA, USA)
Hybridization protocol Hybridizations were performed according to protocols from Affymetrix.
Labeled RNA was hybridized to Human Genome U133A microarray (Affymetrix),
after quality checking on GeneChips Test 3 Arrays.
Scan protocol Washing and scanning were performed using Fluidics Station 400 and
GeneChip Scanner (Affymetrix Inc.).
Description None
Data processing Expression value for each probe set was calculated using
RMAExpress program that uses RMA (robust multi-array
average) algorithm For a first supervised analysis,
gene-filtering methods were applied following the detection
calls calculated using MAS 5.0 algorithm (Affymetrix). Probe sets
with absent calls as well as those showing minimal variation
across all samples (maximum–minimum log2 variation < 2.5)
were filtered out. In a second, more exhaustive analysis, the
complete set of microarrays without gene filtering was
introduced in a multivariable matrix where each of the six cell
states (NBL, WM-BL, CLL-BL, NPC, WM-PC and MM-PC) were
introduced to perform the differential expression analyses.
Submission date Jan 09, 2007
Last update date Jan 17, 2007
Contact name Norma Carmen Gutierrez
Phone 34923291375
Organization name University Hospital
Department Hematology
Street address
City Salamanca
ZIP/Postal code 37007
Country Spain
Platform ID GPL96
Series (1)
GSE6691 Gene expression profiling of B lymphocytes and plasma cells from WaldenstrÖm’s macroglobulinemia.

Data table header descriptions

Data table
1007_s_at 6.20879
1053_at 3.851582
117_at 4.617638
121_at 7.112405
1255_g_at 3.717106
1294_at 7.244012
1316_at 5.1992
1320_at 3.979274
1405_i_at 4.051104
1431_at 3.750766
1438_at 5.769571
1487_at 5.433406
1494_f_at 5.085583
1598_g_at 9.481346
160020_at 6.274981
1729_at 7.138439
1773_at 4.910002
177_at 4.169885
179_at 7.61489
1861_at 4.768099

Total number of rows: 22283

Table truncated, full table size 431 Kbytes.

Supplementary file Size Download File type/resource
GSM154434.CEL.gz 3.5 Mb (ftp)(http) CEL

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