|
| Status |
Public on Dec 31, 2022 |
| Title |
HCT116 line knocked-out for the mutated H1047R allele (expression wild type allele alone), biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
gene expression data after serum starvation of corresponding cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCT116
genotype/variation: knocked-out for the mutated H1047R allele
|
| Treatment protocol |
HCT116 and DLD1 colon cancer knocked-out cell lines were serum starved (0.5%FBS) in McCoy's medium for 19hrs.
|
| Growth protocol |
HCT116 and DLD1 colon cancer knocked-out cell lines were serum starved (0.5%FBS) in McCoy's medium for 19hrs.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA extraction was performed using Macherey-Nagel nucleospin RNA extraction kit (#740955.50) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA was synthesized from 500ng of total RNA (was converted to cRNA then to ssDNA, using 10ug of cRNA for ssDNA synthesis) using Ambion WT Expression kit (#4491974)
|
| |
|
| Hybridization protocol |
Following fragmentation and labeling (5.5ug of ssDNA was fragmented) (Affymetrix, #900671), 2.3 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Human Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G
|
| Description |
gene expression data after serum starvation
|
| Data processing |
The data were analyzed using GeneSpring12.6 (Affymetrix Expression experiment type; Exon analysis type, RMA16 summarization algorithm)
|
| |
|
| Submission date |
Jun 27, 2014 |
| Last update date |
Dec 31, 2022 |
| Contact name |
Carol Murphy |
| E-mail(s) |
cmurphy@cc.uoi.gr
|
| Phone |
+30-2651007815
|
| Organization name |
FORTH-IMBB
|
| Department |
Biomedical reseach
|
| Street address |
Panepistimioupoli
|
| City |
Ioannina |
| ZIP/Postal code |
45110 |
| Country |
Greece |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE58904 |
Expression data form PI3K Knockout colon cancer cell lines (HCT116 and DLD1) |
|
