|
| Status |
Public on May 07, 2011 |
| Title |
KOPT-K control 2 |
| Sample type |
RNA |
| |
|
| Source name |
control peptide-treated KOPT-K 100mM 16h
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: KOPT-K
cell type: human T-ALL cell line
agent: control
|
| Treatment protocol |
T-ALL1, CEM, KOPT-K, DND41 and HPB-ALL cells lines have been treated with control peptide or IKKg NEMO binding domain (NDB) inhibitory peptide at 100mM for 16 hours
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rneasy (QIAGEN) according to manufacturer's protocol.
|
| Label |
biotin
|
| Label protocol |
20 ng total RNA converted to cDNA using Affymetrix GeneChip® Two-Cycle cDNA Synthesis Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
|
| |
|
| Hybridization protocol |
15 mcg of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
|
| Scan protocol |
Affymetrix GeneArray scanner 7G
|
| Description |
Twenty samples were analyzed: human T-ALL, CEM, KOPT-K, DND41, HPB-ALL cells lines have been treated at 100uM for 16 hours with control peptide or IKKγ Nemo binding domain (NBD) inhibitory peptide, that specifically block the canonical NF-κB activity by disrupting the interaction of IKKγ to IKKβ and IKKα
|
| Data processing |
Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
|
| |
|
| Submission date |
May 10, 2010 |
| Last update date |
May 07, 2011 |
| Contact name |
Iannis Aifantis |
| E-mail(s) |
iannis.aifantis@med.nyu.edu
|
| Phone |
(212) 263 5365
|
| Organization name |
NYU Sch of Medicine
|
| Department |
Pathology
|
| Lab |
MSB 538
|
| Street address |
550 First Ave
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10016 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE20667 |
The Notch/Hes1 pathway sustains NF-κB activation through CYLD repression in T cell leukemia |
|
