|
| Status |
Public on Mar 22, 2018 |
| Title |
yGCL-inner |
| Sample type |
RNA |
| |
|
| Source name |
inner region of the dentate granule cell layer_3-month-old
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl6J
gender: female
age: 3-month
tissue: inner granule cell layer
|
| Treatment protocol |
Mice at the age of eithe 3-month-old or 20-24-month-old were sacrificed. Brains were immediately removed and embedded in OCT compound, and coronal hippocampal sections (20 μm) were cut, mounted onto membrane-coated slides. Laser capture microdissection was performed using the MMI CellCut.
|
| Growth protocol |
Congenic C57Bl6J wilt type mice were used in this study.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from the LCM samples directly captured into the RLT lysis buffer of the RNAeasy Nano kit (Qiagen). The quality was checked using a Bioanalyzer 2100 (Agilent Technologies).
|
| Label |
Cy3
|
| Label protocol |
Cy3 labeled cRNA was prepared from 0.6 ug RNA using the WT-Ovation Pico RNA Amplification System (Nugen), One Color protocol (Agilent 5190-2305) and the Agilent One color RNA Spike-In Kit (Agilent 5188-5252) following the manufacturer's standard protocols.
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| |
|
| Hybridization protocol |
The hybridizations were performed for 17 hours at 10 rpm and 65°C in a hybridization oven (Agilent) using the Mouse GE 4x44K Microarray Kit v2 (GPL11202). Washing and staining of the arrays were performed according to the manufacturer’s recommendation.
|
| Scan protocol |
Cy3 intensities were detected by one-color scanning using an Agilent DNA microarray scanner (G2505B). Scanned image files were inspected for artifacts and then analyzed.
|
| Description |
Gene expression of young inner granule cell layer
|
| Data processing |
Images were auto gridded, analyzed and data extracted using Agilent Feature Extraction software (version 9.5.3). We applied quantile-normalization to the log2-transformed intensity values as a method for between-array normalization.
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| |
|
| Submission date |
Mar 21, 2018 |
| Last update date |
Mar 22, 2018 |
| Contact name |
Tetsuya Imura |
| E-mail(s) |
[email protected]
|
| Organization name |
Kyoto Prefectural University of Medicine
|
| Department |
Pathology
|
| Street address |
kamigyo-ku, kajiicho 465
|
| City |
Kyoto |
| ZIP/Postal code |
602-8566 |
| Country |
Japan |
| |
|
| Platform ID |
GPL11202 |
| Series (1) |
| GSE112121 |
Spatiotemporal transcriptome of the mouse dentate gyrus |
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