|
| Status |
Public on Mar 28, 2012 |
| Title |
MC0002_MCA0061_BM_CD138pos_GEP |
| Sample type |
RNA |
| |
|
| Source name |
MC0002_MCA0061_BM_CD138pos RNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD138 Positive Myeloma Cells
sample order: 1
tc class: D1
cyto risk: low
17p13 deletion: no
ploidy: hyperdiploid
uams 70gene index: good
copy number abnormalities: 13
time since sample1 months: 0
|
| Treatment protocol |
CD138 positive tumor cells were isolated from bone marrow aspirates using magnetic sorting, both Miltenyi and Stem Cell Technologies
|
| Growth protocol |
Bone marrow aspirates were attained from patients after they signed informed consent documetnation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from cells using TRIzol (Invitrogen) in combination with PureLink Micro-to-Midi RNA columns (Invitrogen) using the manufacturers protocol. RNA samples were tested for purity and concentration on a Nanodrop spectrophotometer and quality checked on an Agilent Bioanalyzer
|
| Label |
biotin
|
| Label protocol |
2 ug of Total RNA was labeled using the One-Cycle Target Labeling kit from Affymetrix as per the manufacturers suggestion
|
| |
|
| Hybridization protocol |
Labeled cRNA was hybridized to U133Plus2.0 GeneChips in a GeneChip Hybridization Oven 640 and washed using a GeneChip Fluidics Station 450 as per the manufacturers protocol
|
| Scan protocol |
Arrays were scanned using a GeneChip Scanner 3000 following the recommendations of the manufacturer
|
| Description |
Single sample standard labeling and hybridization
|
| Data processing |
Signal estimates were generated in Expression Console (Affymetrix) using the MAS5 algorithm with default settings
|
| |
|
| Submission date |
Mar 26, 2012 |
| Last update date |
Mar 28, 2012 |
| Contact name |
Jonathan J Keats |
| E-mail(s) |
[email protected]
|
| Phone |
602-343-8690
|
| Organization name |
Translational Genomics Research Institute (TGen)
|
| Department |
Integrated Cancer Genomics
|
| Lab |
Multiple Myeloma Research Lab - Keats Lab
|
| Street address |
445 N. Fifth Street
|
| City |
Phoenix |
| State/province |
Arizona |
| ZIP/Postal code |
85004 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE36824 |
Clonal competition with alternating dominance in multiple myeloma [GEP] |
| GSE36825 |
Clonal competition with alternating dominance in multiple myeloma |
|
