|
| Status |
Public on Nov 01, 2018 |
| Title |
wild-type, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
wild-type worms on control(RNAi)
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole organism
genotype: wild-type
age: L4
|
| Treatment protocol |
Worms were fed control (RNAi)
|
| Growth protocol |
Wild-type and zip-3(gk3164) worms were synchronized by bleaching and raised in liquid culture.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the RNA STAT reagent (Tel-Test Inc) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
200 ng total RNA converted to cRNA using Affymetrix GeneChip®3' IVT Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
|
| |
|
| Hybridization protocol |
10 ug of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
|
| Scan protocol |
Affymetrix GeneArray scanner 7G
|
| Data processing |
Feature intensity was extracted by Affymetrix GeneChip Command Console as CEL files. CHP files are generated by Affymetrix Expression Console. The data were analyzed with MAS 5.0 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
Jul 02, 2013 |
| Last update date |
Nov 01, 2018 |
| Contact name |
Jeffrey Zhao |
| Organization name |
Memorial Sloan Kettering Cancer Center
|
| Department |
Genomics Core
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL200 |
| Series (1) |
| GSE48499 |
Transcriptional difference between wild-type and zip-3(gk3164) |
|
