|
| Status |
Public on Feb 15, 2018 |
| Title |
Organoid_4 |
| Sample type |
RNA |
| |
|
| Source name |
Organoid cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Organoid cells
|
| Growth protocol |
Organoids were grown in expansion medium (EM) consisting of Advanced DMEM F12 supplemented with L-WRN conditioned medium glutamax, HEPES, murine epidermal growth factor (50 ng ml-1), N2 supplement, B27 supplement, 10 nM human [Leu15]-gastrin I, 1 mM n-acetyl cysteine, 10 mM nicotinamide, 10 μM SB202190, 500 nM A83-01. Intestine Chips were fabricated from PDMS and assembled, or they were obtained from Emulate Inc. (Boston, MA). Total RNA was collected for microarray.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Epithelial RNA recovered from the Intestine Chip was extracted using RNeasy Mini Kit followed by cDNA synthesis with SuperScript VILO cDNA Synthesis Kit (Thermo Fisher Scientific).
|
| Label |
biotin
|
| Label protocol |
Preparation of biotinylated cDNA was performed according to the standard Nugen amplification sample preparation protocol, starting with 100ng of total RNA
|
| |
|
| Hybridization protocol |
cDNA was fragmented and 10ug hybridized to an Affymetrix Human Exon 1.0 ST Array for 16 hours. Arrays were washed and stained using the Affy 450 Fluidics Station according to the manufacturer's protocol
|
| Scan protocol |
Arrays were scanned using a GeneChip 3000 scanner according to the manufacturers recommendation
|
| Description |
Gene expression data obtained from Organoid H202 cells
|
| Data processing |
RMA
|
| |
|
| Submission date |
Jan 23, 2018 |
| Last update date |
Feb 16, 2018 |
| Contact name |
Hu Li |
| E-mail(s) |
li.hu@mayo.edu
|
| Organization name |
Mayo Clinic
|
| Department |
Molecular Pharmacology & Experimental Therapeutics
|
| Lab |
Systems Biology and Pharmacology
|
| Street address |
200 First Street, Gonda Building G19-408
|
| City |
Rochester |
| State/province |
MN |
| ZIP/Postal code |
55904 |
| Country |
USA |
| |
|
| Platform ID |
GPL23526 |
| Series (1) |
| GSE109471 |
Development of a primary human Small Intestine-on-a-Chip using biopsy-derived organoids |
|
