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Status |
Public on Sep 01, 2016 |
Title |
TMD8 shcIAP1/2 - 3 days - mAdbID:129698 |
Sample type |
RNA |
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Channel 1 |
Source name |
TMD8 shControl - 3 days
|
Organism |
Homo sapiens |
Characteristics |
cell line: TMD8 cell type: ABC DLBCL cells disease state: activated B cell-like (ABC) subtype of diffuse large B cell lymphoma (DLBCL)
|
Treatment protocol |
Treatment type: shRNA transduction Treatment time: 3 days In-vitro treatment: Cells were transduced with retroviral vectors expressing shControl. shRNA expression was induced with doxycycline for 3 days.
|
Extracted molecule |
total RNA |
Extraction protocol |
TRIzol Extraction Protocol Other: Total RNA was prepared by the TRIzol method (Invitrogen) and purified using RNeasy Mini columns (Qiagen).
|
Label |
cy3
|
Label protocol |
Agilent Labeling-Cy3 Other: Total RNA was reverse transcribed to cDNA using T7 Promoter Primer and MMLV-RT. Then the cDNA was converted to aRNA polymerase, which simultaneously amplifies target material and incorporates cyanine 3- or cyanine 5-labeled CTP (Two-Color Microarray-Based Gene Expression Analysis Protocol, Agilent).
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|
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Channel 2 |
Source name |
TMD8 shcIAP1/2 - 3 days
|
Organism |
Homo sapiens |
Characteristics |
cell line: TMD8 cell type: ABC DLBCL cells disease state: activated B cell-like (ABC) subtype of diffuse large B cell lymphoma (DLBCL)
|
Treatment protocol |
Treatment type: shRNA transduction Treatment time: 3 days In-vitro treatment: Cells were transduced with retroviral vectors expressing shcIAP1 and shcIAP2. shRNA expression was induced with doxycycline for 3 days.
|
Extracted molecule |
total RNA |
Extraction protocol |
TRIzol Extraction Protocol Other: Total RNA was prepared by the TRIzol method (Invitrogen) and purified using RNeasy Mini columns (Qiagen).
|
Label |
cy5
|
Label protocol |
Agilent Labeling-Cy5 Other: Total RNA was reverse transcribed to cDNA using T7 Promoter Primer and MMLV-RT. Then the cDNA was converted to aRNA polymerase, which simultaneously amplifies target material and incorporates cyanine 3- or cyanine 5-labeled CTP (Two-Color Microarray-Based Gene Expression Analysis Protocol, Agilent).
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Hybridization protocol |
Agilent Hybridization Other: According to the manufacture's recommended protocol (Two-Color Microarray-Based Gene Expression Analysis, Agilent).
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Scan protocol |
Scan_MicronsPerPixelX: 2 Scan_MicronsPerPixelY: 2 Scan_ScannerName: Agilent Technologies Scanner G2505C US45102888 Agilent Scanning Protocol Other: Arrays were scanned at 5um resolution on an Agilent DNA Microarray Scanner (G2505C, Agilent) using the default settings for 4x44k format two-color arrays.
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Description |
mAdb experiment ID: 129698
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Data processing |
Agilent Data Processing Protocol Calculation Method: Images were auto gridded, analyzed and data extracted using Agilent Feature Extraction Software. Spot values were normalized using the default linear-lowess normalization. FeatureExtractor_Version: 10.1.1.1 Protocol_Name: GE2-v5_10_Apr08 (Read Only)
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Submission date |
Jan 11, 2016 |
Last update date |
Sep 01, 2016 |
Contact name |
Louis M. Staudt |
E-mail(s) |
lstaudt@mail.nih.gov
|
Phone |
301-402-1892
|
Organization name |
National Cancer Institute
|
Department |
Lymphoid Malignancies Branch
|
Lab |
Louis M Staudt
|
Street address |
9000 Rockville Pike, Bldg 10, Rm 4N114
|
City |
Bethesda |
State/province |
MD |
ZIP/Postal code |
20892 |
Country |
USA |
|
|
Platform ID |
GPL13607 |
Series (1) |
GSE73281 |
Targeting Non-proteolytic Protein Ubiquitination for the Treatment of Diffuse Large B Cell Lymphoma (Agilent Arrays) |
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