|
| Status |
Public on Nov 01, 2016 |
| Title |
02HBOV |
| Sample type |
RNA |
| |
|
| Source name |
Isolated ovarian follicles at 2 hr before spawning stage
|
| Organism |
Oryzias latipes |
| Characteristics |
tissue: ovary
cell type: follicles
developmental stage: 2 hr before spawning
|
| Growth protocol |
Medaka (Oryzias latipes) were maintained under the reporoductive condition (at 27°C, 14-hr light/10-hr dark). The ovaries were removed from females at each smpling time. The ovaries were dissected and the largest and second-largest ovarian follicles were isolated at each time point.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer at the Harvard-Partners Center for Genetics and Genomics (Harvard Medical School, Cambridge, MA USA).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by Roche Diagnostics K.K., Tokyo. Labeled cDNA was synthesized by using NimbleGen One-Color DNA Labeling Kit (Roche NimbleGen Inc., Madison, WI) including Cy3 Random Nonamers and Klenow enzyme (3'->5' exo-) according to the manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
Hybridization was performed by Roche Diagnostics K.K., Tokyo, Japan following their standard operating protocol.
|
| Scan protocol |
Scanning was performed by Roche Diagnostics K.K., Tokyo, Japan, following their standard operating protocol.
|
| Description |
This sample is of isolated Oryzias latipes ovarian follicles at 5 hour before spawning stage. Hundred ovarian follicles of this stage were collected and total RNAs were extructed.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis), quantile normalization, and background correction as implemented in the DEVA software version 1.2 (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Jan 06, 2016 |
| Last update date |
Nov 01, 2016 |
| Contact name |
Yasushi Shibata |
| E-mail(s) |
shibatay@uw.edu
|
| Organization name |
University of Washington
|
| Department |
SAFS
|
| Lab |
Graham Young
|
| Street address |
1122 NE Boat Street
|
| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98195-5020 |
| Country |
USA |
| |
|
| Platform ID |
GPL21305 |
| Series (1) |
| GSE76607 |
Gene expression in medaka (Oryzias latipes) ovarian follicles at late vitellogenesis, oocyte maturation and pre-ovulation stages |
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