NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1924739 Query DataSets for GSM1924739
Status Public on Nov 04, 2015
Title CEM_BTZ7 Replicate 3
Sample type RNA
 
Source name CCRF-CEM resistant to 7 nM bortezomib, cultured in presence of 7nM bortezomib
Organism Homo sapiens
Characteristics cell line: CCRF-CEM
cell type: T Lymphoblast
Treatment protocol Cultured in presence of indicated concentration of BTZ for several weeks. 24 hour before RNA extraction, medium was refreshed and the corrensponding concentration bortezomib was added. RNA of was extracet from untreated cells and WT cells treated with 7nM of bortezomib for 24hours.
Growth protocol RPMI +10%fcs, in presence of indicated concentration of BTZ for several weeks
Extracted molecule total RNA
Extraction protocol RNA was isolated using RNAbee (AMSBiotechnology), according to the protocol provided by AMSBiotechnology.
Label Cy3
Label protocol labeling performed with Agilent Low RNA Input Fluorescent Linear Amplification Kit, Agilent Technologies
 
Hybridization protocol Equal amounts of Cy3-CTP and Cy5-CTP labeled samples were hybridized to Agilent 4 × 44K Whole Human Genome arrays (Agilent Technologies) according to the manufacturer's instructions. Hybridization was carried out for 17 h with rotation at 65 °C in a hybridization oven.
Scan protocol Microarrays were scanned using the Agilent DNA Microarray Scanner (Agilent Technologies)
Data processing Raw expression data generated by the Feature Extraction software were imported into the R statistical environment using the LIMMA package in bioconductor (http://www.bioconductor.org). After background correction, the intensity distributions within and between arrays were normalized using the Loess [92] and quantile [93] algorithm, respectively.
 
Submission date Nov 03, 2015
Last update date Nov 04, 2015
Contact name Daoud Sie
E-mail(s) d.sie@vumc.nl
Phone +31 20 4442428
Organization name Vrije Universiteit Medical Center
Department Pathology
Lab Microarray Core Facility
Street address De Boelelaan 1117
City Amsterdam
ZIP/Postal code 1081 HV
Country Netherlands
 
Platform ID GPL4133
Series (2)
GSE74634 Bortezomib resistance in CCRF-CEM cell line [GEP]
GSE74635 Bortezomib resistance in CCRF-CEM cell line

Data table header descriptions
ID_REF
VALUE Loess and quantile normalized log2 values

Data table
ID_REF VALUE
1 15.38572845
2 4.96989496
3 5.112108718
4 4.951535344
5 5.106232086
6 5.201669704
7 5.240327536
8 5.231540332
9 5.18507936
10 5.15975948
11 5.299030091
12 6.549710271
13 6.757775156
14 9.176767453
15 5.997860612
16 13.30863324
17 5.843314643
18 8.225322823
19 14.92332319
20 5.86017359

Total number of rows: 45015

Table truncated, full table size 775 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap