|
| Status |
Public on Apr 23, 2012 |
| Title |
Basal cochlea at postnatal day 8 [P8-Base_2012] |
| Sample type |
RNA |
| |
|
| Source name |
wild-type, basal cochlea
|
| Organism |
Mus musculus |
| Characteristics |
age: P8
tissue: cochlea_base
genetic background: C57BL/6
|
| Treatment protocol |
Not applicable
|
| Growth protocol |
Mouse cochlea dissected from day 0 and 8 pups
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Eighty temporal bones were dissected from mice at P0 and P8. After removing the otic capsule, The cochlear tissues were divided into three equal pieces representing the basal, middle and apical turns, and pooled separately. The pooled cochlear tissues were homogenized with a micro-homogenizer, and total RNA was extracted using an RNeasy Mini Kit.
|
| Label |
biotin
|
| Label protocol |
Three hundred nano-gram of high quality total RNA was converted into double-stranded cDNA using a random hexamer conjugated with a T7 promoter sequence. cRNA was generated from the double-stranded cDNA using an in vitro transcription (IVT) reaction and then re-converted into cDNA with dNTPs mix containing dUTP. This cDNA was then fragmented by uracil-DNA glycosylase (UDG) and APE1 restriction endonucleases and labeled with a biotinylated dideoxynucleotide by terminal transferase reaction
|
| |
|
| Hybridization protocol |
End-labeled cDNA was hybridized for 16 hours at 45℃ and 60 rpm according to Gene Chip Whole Transcript (WT) Sense Target Labeling Assay Manual (Affymetrix).
|
| Scan protocol |
GeneChips were stained and washed in a Genechip Fluidics Station 450 (Affymetrix) and scanned by using a Genechip Array scanner 3000 7G (Affymetrix)
|
| Description |
pooled basal cochlea
|
| Data processing |
Affymetrix Command Console Software version 1.1 was used to process the raw images into CEL files. Gene expression estimates were normalized using the robust multiarray averaging (RMA) method.
|
| |
|
| Submission date |
Apr 23, 2012 |
| Last update date |
Apr 23, 2012 |
| Contact name |
Heejei Yoon |
| E-mail(s) |
[email protected]
|
| Phone |
2-2228-1657
|
| Organization name |
Yonsei University
|
| Department |
Anatomy
|
| Lab |
Developmental Biology
|
| Street address |
134 Shinchondong, Seodaemoongu
|
| City |
Seoul |
| ZIP/Postal code |
120-749 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE34187 |
Gene expression profiles along the tonotopic axis of the mouse cochlea during neonatal development |
|
