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Sample GSM154429 Query DataSets for GSM154429
Status Public on Mar 01, 2007
Title normal B lymphocytes (NBL 533)
Sample type RNA
Source name Peripheral blood
Organism Homo sapiens
Characteristics BL from healthy donors, isolated using CD19-PE-Cy7.
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 6.637056
1053_at 4.492838
117_at 4.290998
121_at 6.76889
1255_g_at 3.414293
1294_at 8.110623
1316_at 4.980094
1320_at 4.04038
1405_i_at 4.039353
1431_at 3.797383
1438_at 5.67121
1487_at 5.672007
1494_f_at 4.924515
1598_g_at 7.392007
160020_at 6.028926
1729_at 7.520722
1773_at 4.697827
177_at 3.984066
179_at 7.538507
1861_at 4.60279

Total number of rows: 22283

Table truncated, full table size 431 Kbytes.

Supplementary file Size Download File type/resource
GSM154429.CEL.gz 3.4 Mb (ftp)(http) CEL

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