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Status |
Public on Nov 10, 2012 |
Title |
SC-1 control REP1 |
Sample type |
RNA |
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|
Source name |
DLBCL cell line SC-1 stably transfected with a tetracycline-inducible LITAF expression vector, absence of doxycycline
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Organism |
Homo sapiens |
Characteristics |
cell line: SC-1 cell type: diffuse large B-cell lymphoma (DLBCL) cells stably transfected with a tetracycline-inducible LITAF expression vector treatment: none
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Treatment protocol |
Absence or presence of 4 mg/ml doxycycline for LITAF over-expression. Nucleofection (AMAXA) with Silencer Select Negative Control No. 1 (AM4611, Invitrogen) or a LITAF-specific siRNA (s18252, Invitrogen) for silencing. RNA was extracted 48h after the treatment.
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Growth protocol |
Cell lines were grown at 37ºC and 5% CO2 in RPMI 1640 supplemented with 10% fetal bovine serum, 100 units/mL of penicillin and 100 mg/mL of streptomycin.
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Extracted molecule |
total RNA |
Extraction protocol |
The cells were harvested with TRIzol Reagent (Invitrogen) and the RNA was extracted according to the manufacturer's instructions. As a last step of the extraction procedure, the RNA was purified with the RNeasy Mini-kit (Qiagen, Hilden, Germany).
|
Label |
Biotin
|
Label protocol |
The cDNA was prepared from 2 microg total RNA using the One-Cycle cDNA Synthesis kit from Affymetrix. This cDNA was used for synthesizing the cRNA using the IVT labeling kit (Affymetrix). The synthesized cRNA was purified with the GeneChip Sample Cleanup Module (Affymetrix).
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Hybridization protocol |
Following fragmentation, 15 microg of cRNA were hybridized to the Affymetrix HG-U133 Plus 2.0 chip according to the protocols provided by the manufacturer.
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Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 from Affymetrix.
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Description |
SC1_LITAF_CTRL_R1 Gene expression data from a DLBCL cell line.
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Data processing |
Data were normalized with Bioconductor software using the RMA algorithm.
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Submission date |
Nov 08, 2012 |
Last update date |
Nov 10, 2012 |
Contact name |
Raquel Malumbres |
E-mail(s) |
rmalumbres@yahoo.com
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Phone |
+34 948194700
|
Organization name |
University of Navarra/ Clínica Universidad de Navarra
|
Department |
Hemato-Oncology
|
Lab |
Multiple Myeloma
|
Street address |
Avenida Pio XII 55
|
City |
Pamplona |
State/province |
Navarra |
ZIP/Postal code |
31008 |
Country |
Spain |
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Platform ID |
GPL570 |
Series (2) |
GSE42174 |
Global expression analysis of DLBCL cell lines with LITAF over-expression or silencing |
GSE42204 |
LITAF, a BCL6 target gene, regulates autophagy in mature B-cell lymphomas |
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