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GEO accession:
Sample GSM1105660
Query DataSets for GSM1105660
Status
Public on Jul 09, 2013
Title
primary DLBCL sample 058 (part a)
Sample type
RNA
Source name
morphological DLBCL
Organism
Homo sapiens
Characteristics
sample type: primary DLBCL
subtype: GCB
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
6.331698895
10_at
3.791133165
100_at
9.206889153
1000_at
5.398719788
10000_at
5.499268055
100009613_at
5.405535221
100009676_at
6.423843384
10001_at
6.946442604
10002_at
5.028224468
10003_at
3.934188843
100033423_at
7.003722191
100033424_at
4.103383541
100033425_at
6.145727634
100033426_at
10.79426003
100033436_at
4.848918915
100033444_at
3.396936893
100033453_at
2.836961269
100033806_at
4.267874718
100033820_at
5.288378239
100037417_at
7.022052288
Total number of rows:
22994
Table truncated, full table size
476 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM1105660_DLBCL_058.CEL.gz
22.6 Mb
(ftp)
(http)
CEL
Processed data included within Sample table
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