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GEO accession:
Sample GSM1105676
Query DataSets for GSM1105676
Status
Public on Jul 09, 2013
Title
primary DLBCL sample 111 (part a)
Sample type
RNA
Source name
morphological DLBCL
Organism
Homo sapiens
Characteristics
sample type: primary DLBCL
subtype: ABC
Treatment protocol
fresh frozen tumor samples
Growth protocol
tumor sample biopsy
Extracted molecule
total RNA
Extraction protocol
total RNA was extracted by RNeasy Mini Kit (Quiagen) according to manufacturers protocol
Label
biotin
Label protocol
Affymetrix Labeling Protocol (Proprietary protocol information available at
http://www.affymetrix.com/estore/browse/products.jsp?productId=prod110002&categoryId=35699#1_1
)
Hybridization protocol
Affymetrix Hybridization Protocol (Proprietary protocol information available at
http://www.affymetrix.com/estore/browse/products.jsp?productId=131467&categoryId=35807#1_1
)
Scan protocol
Affymetrix Scan Protocol (Proprietary protocol information available at
http://www.affymetrix.com/Auth/support/downloads/manuals/wash_stain_scan_cartridge_arrays_manual.pdf
)
Description
primary DLBCL sample
Data processing
Raw CEL data were RMA background corrected and then quantile-normalized. Probes were aggregated to Entrez Gene probesets as defined by the custom CDF [1] as described in [2] via median polish. [1]
http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/14.1.0/entrezg.download/HuEx10stv2_Hs_ENTREZG_14.1.0.zip
[2]M. Dai, F. Meng et al. (2005) Evolving Gene/Transcript Definitions Significantly Alter the Interpretation of GeneChip Data. Nucleic Acid Research 33 (20), e175.
Submission date
Mar 26, 2013
Last update date
Jul 11, 2013
Contact name
Michael Grau
Organization name
University of Münster
Department
Faculty of Medicine
Lab
Translational Oncology
Street address
Albert-Schweitzer-Campus 1
City
Münster
State/province
Nordrhein-Westfalen
ZIP/Postal code
48149
Country
Germany
Platform ID
GPL16869
Series (1)
GSE45495
PTEN loss defines a PI3K/AKT pathway-dependent germinal center subtype of diffuse large B-cell lymphoma
Data table header descriptions
ID_REF
VALUE
log2 transformed expression intensities of aggregated Entrez Gene probesets
Data table
ID_REF
VALUE
1_at
6.814661026
10_at
4.307238579
100_at
8.411196709
1000_at
5.924964428
10000_at
5.554932594
100009613_at
5.796301842
100009676_at
7.063045025
10001_at
6.326937199
10002_at
5.425898075
10003_at
4.145981312
100033423_at
7.223002434
100033424_at
5.591710091
100033425_at
6.207406998
100033426_at
11.53624058
100033436_at
2.312777519
100033444_at
6.327459335
100033453_at
2.181793928
100033806_at
4.030898094
100033820_at
5.851489544
100037417_at
6.151407242
Total number of rows:
22994
Table truncated, full table size
476 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM1105676_DLBCL_111.CEL.gz
23.4 Mb
(ftp)
(http)
CEL
Processed data included within Sample table
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