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Sample GSM1059810 Query DataSets for GSM1059810
Status Public on Jan 04, 2013
Title DLBCL cell line OCI-Ly02 versus male control DNA
Sample type genomic
 
Channel 1
Source name DLBCL cell line OCI-Ly02
Organism Homo sapiens
Characteristics gender: male
cell line: DLBCL cell line OCI-Ly02
cell type: diffuse large B-cell lymphoma (DLBCL)
Extracted molecule genomic DNA
Extraction protocol Genomic DNA from DLBCL cell lines was extracted using the DNeasy Blood and Tissue Kit (Qiagen) according to the manufacturer's recommendations.
Label Cy5
Label protocol NimbleGen Labeling Protocol (Proprietary protocol information available at http://www.nimblegen.com/products/kits/labeling/index.html)
 
Channel 2
Source name male control DNA
Organism Homo sapiens
Characteristics gender: male
Extracted molecule genomic DNA
Extraction protocol Genomic DNA from DLBCL cell lines was extracted using the DNeasy Blood and Tissue Kit (Qiagen) according to the manufacturer's recommendations.
Label Cy3
Label protocol NimbleGen Labeling Protocol (Proprietary protocol information available at http://www.nimblegen.com/products/kits/labeling/index.html)
 
 
Hybridization protocol NimbleGen Hybridization Protocol (Proprietary protocol information available at http://www.nimblegen.com/products/kits/hybridization/index.html)
Scan protocol NimbleGen Scan Protocol (Proprietary protocol information available at http://www.nimblegen.com/products/software/nimblescan/index.html)
Description OCI-Ly02 vs maleControlDNA
Data processing The unspecific binding intensity was estimated using the random control probes and subtracted. Outlier probes and probes with too low signal were detected and removed (set to NaN). [Note: (1) the two 'DNAPool vs maleControlDNA' replicates were averaged already on signal level to get more robust results (thus the processed log2(ratio)s for these two replicates are identical). (2) The normalized values of the random sequence probes (e.g. RANDOM00000001, RANDOM00000002 etc) were used to subtract the unspecific binding offsets and included in the full_normalized_data.txt file available on Series records.]
 
Submission date Jan 03, 2013
Last update date Jan 04, 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 GPL15436
Series (1)
GSE43272 MCL1 is deregulated in subgroups of diffuse large B-cell lymphoma

Data table header descriptions
ID_REF
VALUE log2(ratio)s, i.e. -log2(linear signal of REF/Cy3 channel) + log2(linear signal of EXP/Cy5 channel)

Data table
ID_REF VALUE
CHR01FS000032108 -0.73932457
CHR01FS000036566 -0.442276955
CHR01FS000037196 -0.91361618
CHR01FS000038109 -0.374998093
CHR01FS000039532 -0.584033012
CHR01FS000049283 -0.297569275
CHR01FS000052308 -0.658101082
CHR01FS000055650 -0.516429901
CHR01FS000059489 -0.639307022
CHR01FS000060884 -0.831079483
CHR01FS000072260 -0.520655632
CHR01FS000241735 -0.03690815
CHR01FS000357503 -0.924791336
CHR01FS000389471 -0.582321167
CHR01FS000403676 -0.185056686
CHR01FS000443361 -0.027033806
CHR01FS000530358 -0.9385252
CHR01FS000532718 -0.504244804
CHR01FS000547649 -1.017059326
CHR01FS000553694 -0.776290894

Total number of rows: 719690

Table truncated, full table size 20488 Kbytes.




Supplementary file Size Download File type/resource
GSM1059810_439558A02_532.pair.gz 12.4 Mb (ftp)(http) PAIR
GSM1059810_439558A02_635.pair.gz 12.4 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data are available on Series record

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