|
| Status |
Public on Feb 22, 2017 |
| Title |
FACS-sorted human ICC_replicate_1 |
| Sample type |
RNA |
| |
|
| Source name |
FACS-sorted human ICC
|
| Organism |
Homo sapiens |
| Characteristics |
tissue source: De-identified human gastric tissues
cell type: FACS-sorted human intersitial cells of Cajal (ICC)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared from cells using the Total RNA Purification Kit (Norgen, Ontario, Canada). RNA quality was assessed by Agilent Bioanalyzer (Santa Clara, CA).
|
| Label |
biotin/streptavidin-phycoerythrin
|
| Label protocol |
The Ovation Pico WTA system (NuGEN, San Carlos, CA) was used to prepare cDNA by single primer isothermal amplification (SPIA®).
|
| |
|
| Hybridization protocol |
The SPIA cDNA was then bead-purified, fragmented, and hybridized onto Affymetrix GeneChip Human Genome U133 Plus 2.0 array (Affymetrix, Santa Clara, CA). Subsequent to hybridization, the arrays were washed and stained with streptavidin-phycoerythrin.
|
| Scan protocol |
The arrays were scanned in an Affymetrix GeneChip® Scanner 3000 (Santa Clara, CA). All control parameters were confirmed to be within normal ranges before normalization and data reduction was initiated.
|
| Description |
ICC_1
|
| Data processing |
Analysis was performed using Bioconductor, a publicly available group of software packages. Affy was used to preprocess individual probe intensities from CEL files into RMA-normalized values.
|
| |
|
| Submission date |
Feb 11, 2016 |
| Last update date |
Feb 22, 2017 |
| Contact name |
Tamas Ordog |
| E-mail(s) |
ordog.tamas@mayo.edu
|
| Organization name |
Mayo Clinic
|
| Street address |
200 1st St SW
|
| City |
Rochester |
| State/province |
MN |
| ZIP/Postal code |
55905 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE77839 |
Transcriptome analysis of a FACS-sorted human intersitial cells of Cajal (ICC) [array] |
|
