|
| Status |
Public on May 05, 2012 |
| Title |
Xenopus laevis inner ear_ biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Xenopus laevis juveniles
|
| Organism |
Xenopus laevis |
| Characteristics |
developmental stage: juvenile
age: ~1 month
tissue: inner ear
|
| Growth protocol |
Juvenile Xenopus laevis (n = 21) were approximately 1 month old with an average weight of 2.4 ± 1.0 g and an average length of 2.7 ± 0.3 cm and obtained from Nasco (Fort Atkinson, WI). Animal husbandry and surgical procedures were approved by the Institutional Animal Care and Use Committee (IACUC) of New Mexico State University.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini Kit (Qiagen, Valencia, CA) as per Trujillo-Provencio C, Powers T, Sultemeier D, Serrano E: RNA isolation from Xenopus inner ear sensory endorgans for transcriptional profiling and molecular cloning. Methods Mol Biol 2009, 493:3-20.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared from each RNA replicate (~ 1 ug total RNA) using the GeneChip® One-Cycle Target Labelling kit following the manufacturer’s protocol (Affymetrix).
|
| |
|
| Hybridization protocol |
20 ug of cRNA after fragmentation were hybridized following the manufacturer’s protocol (Affymetrix).
|
| Scan protocol |
Xenopus laevis GeneChips were scanned by the GeneChip Scanner 3000 7G (Affymetrix).
|
| Description |
XIE1
|
| Data processing |
Bioconductor packages 'affy' and 'gcrma' were used to read in the CEL files and for preprocessing, respectively. Both packages were implemented in R.
|
| |
|
| Submission date |
May 04, 2012 |
| Last update date |
May 05, 2012 |
| Contact name |
Elba E. Serrano |
| E-mail(s) |
serrano@nmsu.edu
|
| Fax |
575-646-5665
|
| URL |
http://biology-web.nmsu.edu/serrano/neurolab/neurolab.html
|
| Organization name |
New Mexico State University
|
| Department |
Biology
|
| Street address |
1200 S. Horseshoe, MSC 3AF
|
| City |
Las Cruces |
| ZIP/Postal code |
88005 |
| Country |
USA |
| |
|
| Platform ID |
GPL1318 |
| Series (1) |
| GSE37767 |
Expression data from juvenile Xenopus laevis inner ear tissue |
|
