|
| Status |
Public on Jan 04, 2013 |
| Title |
DLBCL cell line HT versus male control DNA |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
DLBCL cell line HT
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
cell line: DLBCL cell line HT
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 |
HT 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 |
|
