|
| Status |
Public on Mar 07, 2017 |
| Title |
NHDF on NHDF-derived matrix, biological rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
human neonatal dermal fibroblasts (NHDF)
|
| Organism |
Homo sapiens |
| Characteristics |
culture substrate: NHDF-derived matrix
|
| Treatment protocol |
N/A
|
| Growth protocol |
Bone-marrow-derived human mesenchymal stem cells (Bm MSC, Texas A&M University System Health Science Center), adipose-derived human MSC (Ad MSC, Thermo Fisher Scientific) and human neonatal dermal fibroblasts (NHDF, Lonza) were seeded on each substrate (i.e., Bm ECM, Ad ECM, Der ECM or TCPS) at a cell density of 3,500 cells/cm2. Cells were cultured in α–MEM medium supplemented with 20% FBS and 1% penicillin-streptomycin for 3 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell pellet using RNeasy Mini Kit (Qiagen, Hilden, Germany) following manufacturer's instructions
|
| Label |
biotin
|
| Label protocol |
Total RNA was amplified and labeled GeneChip WT Plus Reagent Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
5.2ug of ss-cDNA is hybridized 16h at 45C GeneChip® PrimeView™ Human Gene Expression Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the 7G Gene Chip Scanner
|
| Description |
Gene expression data from NHDF on NHDF-derived matrix
|
| Data processing |
CEL files were processed, summarized and normalized using R/Bioconductor packages affyPLM_1.46.0, preprocessCore_1.32.0 and affy_1.48.0 using RMA.
|
| |
|
| Submission date |
Feb 08, 2017 |
| Last update date |
Mar 07, 2017 |
| Contact name |
Charles Arthur Whittaker |
| E-mail(s) |
charliew@mit.edu
|
| Organization name |
Koch Institute
|
| Street address |
77 Mass Ave 76-189
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02152 |
| Country |
USA |
| |
|
| Platform ID |
GPL16043 |
| Series (1) |
| GSE94667 |
Comprehensive proteomic characterization of stem cell-derived extracellular matrices |
|
