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Status
Public on Sep 15, 2006
Title
SKI-DLCL cells_Aplidin 3nM_24h_rpt1
Sample type
RNA
Source name
SKI-DLCL cells
Organism
Homo sapiens
Characteristics
SKI-DLCL cells treated with Aplidin (3nM) for 24h. Total RNA was extracted.
Biomaterial provider
own
Treatment protocol
Aplidin alone at concentration 3 nM
Growth protocol
Cells were grown under standard cell culture condition (95% air, 5% CO2, 37C)
Extracted molecule
total RNA
Extraction protocol
Total RNA was extracted using RNeasy kit from Qiagen.
Label
Biotin
Label protocol
Synthesis of Biotin-Labeled cRNA/Purification ENZO BioArray RNA Transcript Labeling Kit GeneChip Sample Cleanup Module Miscellaneous Reagents/Supplies 100% ethanol room temperature 80% ethanol room temperature Water, Molecular Biology Grade or DEPC-treated Ethidium Bromide Sterile, RNase-free, microcentrifuge tubes, 1.5mL Micropipettors Sterile-barrier, RNase-free pipette tips Mini agarose gel electrophoresis unit with appropriate buffers UV Spectrophotometer Cooling water bath
Hybridization protocol
Hybridization Water, Molecular Biology Grade or DEPC-treated Acetylated Bovine Serum Albumin (BSA) solution (50 mg/mL) Herring Sperm DNA GeneChip Eukaryotic Hybridization Control Kit 5M NaCl, RNase-free, DNase-free MES Free Acid Monohydrate MES Sodium Salt EDTA Disodium Salt Miscellaneous Reagents/Supplies Surfact-Amps 20 (Tween-20), 10% Hybridization Oven 640 Sterile, RNase-free, microcentrifuge tubes, 1.5mL Micropipettors Sterile-barrier pipette tips and non-barrier tips Heatblock
Scan protocol
Washing, Staining, and Scanning Water, Molecular Biology Grade Distilled water Acetylated Bovine Serum Albumin (BSA) solution (50 mg/mL) R-Phycoerythrin Streptavidin 20X SSPE (3M NaCl, 0.2M NaH2PO4, 0.02M EDTA) Goat IgG, Reagent Grade Anti-streptavidin antibody (goat), biotinylated 10% surfact-Amps 20 (Tween-20)
Description
Samples were processed in CINJ Core Expression Array Facility according to Affymetrix protocol.
Data processing
scanned fluorescence intensity, no normalization
Submission date
Aug 31, 2006
Last update date
Dec 23, 2010
Contact name
Pravin Mishra
E-mail(s)
mishrapr@umdnj.edu
Organization name
UMDNJ
Department
Pharmacology
Lab
Bertino/Banerjee
Street address
195 Little Albany St.
City
New Brunswick
State/province
NJ
ZIP/Postal code
08904
Country
USA
Platform ID
GPL571
Series (1)
GSE5681
Aplidin synergizes with cytosine arabinoside: functional relevance of mitochondria in Aplidin-induced cytotoxicity
Data table header descriptions
ID_REF
VALUE
fluorescence intensity values
Data table
ID_REF
VALUE
AFFX-BioB-5_at
96.3
AFFX-BioB-M_at
122.6
AFFX-BioB-3_at
57.1
AFFX-BioC-5_at
281.1
AFFX-BioC-3_at
309
AFFX-BioDn-5_at
512.9
AFFX-BioDn-3_at
1378.5
AFFX-CreX-5_at
2960.5
AFFX-CreX-3_at
3595.6
AFFX-DapX-5_at
5.3
AFFX-DapX-M_at
4.6
AFFX-DapX-3_at
3.4
AFFX-LysX-5_at
3.1
AFFX-LysX-M_at
0.6
AFFX-LysX-3_at
2.3
AFFX-PheX-5_at
2.8
AFFX-PheX-M_at
0.3
AFFX-PheX-3_at
7.5
AFFX-ThrX-5_at
5.3
AFFX-ThrX-M_at
0.5
Total number of rows: 22277 Table truncated, full table size 342 Kbytes .Supplementary file
Size
Download
File type/resource
GSM132941.CEL.gz
3.2 Mb
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CEL