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Status |
Public on Dec 31, 2014 |
Title |
Immortalized human bone marrow-derived mesenchymal stromal cell line iMSC#3, Affymetrix SNP 6 |
Sample type |
genomic |
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Source name |
iMSC#3
|
Organism |
Homo sapiens |
Characteristics |
cell line: iMSC#3 sample origin: Human bone marrow-derived mesenchymal stromal cell gender: Male
|
Growth protocol |
iMSC#3 was cultured in minimum essential medium (MEM) Alpha medium (cat. no. 22561) supplemented with 10% FBS (PAA Laboratories), GlutaMAX, penicillin (100U/mL), and streptomycin (100 mg/mL) (all from Life Technologies) at 37C and 5% CO2. Non-adherent cells were removed after approximately 24 h by replacement of the medium. Subsequently, the adherent cells were allowed to expand until 70% confluence (5–6 days) before they were harvested and further expanded.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
DNA was isolated using the Wizard Genomic DNA Purification Kit (Promega, Madison, USA).
|
Label |
Biotin
|
Label protocol |
Standard Affymetrix label protocol
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Hybridization protocol |
Standard Affymetrix hyb protocol
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Scan protocol |
Standard Affymetrix scan protocol
|
Data processing |
Quality control was performed using the Genotyping Console v3.0.1 software (Affymetrix), applying the contrast quality control (CQC) algorithm with a minimal call rate of > 86 %. DNA copy number analysis was performed using the Nexus software (BioDiscovery, California, USA), with the SNPRank segmentation algorithm using default settings (threshold of 0.6 for high copy gain, 0.2 for gain, -0.2 for loss and -1.0 for homozygous loss). Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; 'Signal' = Summarized signal Copy number probes and segments, as well as SNP calls and segments obtained from NEXUS copy number. Used Hg19
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Submission date |
Jun 05, 2013 |
Last update date |
Dec 31, 2014 |
Contact name |
Leonardo A. Meza-Zepeda |
E-mail(s) |
L.A.Meza-Zepeda@ous-research.no
|
Phone |
+47-99035706
|
Organization name |
Oslo University Hospital
|
Department |
Department of Tumor Biology
|
Lab |
Meza-Zepeda
|
Street address |
Ullernchausseen 70
|
City |
Oslo |
ZIP/Postal code |
0310 |
Country |
Norway |
|
|
Platform ID |
GPL6801 |
Series (2) |
GSE47646 |
Generation and Characterization of an immortalized human mesenchymal stromal cell line model [Affymetrix] |
GSE47651 |
Generation and Characterization of an immortalized human mesenchymal stromal cell line model |
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