|
| Status |
Public on Jun 01, 2018 |
| Title |
Venous blood_D95_B_W708 |
| Sample type |
RNA |
| |
|
| Source name |
Venous blood, 95 days, brutal, foal W708
|
| Organism |
Equus caballus |
| Characteristics |
breed: Welsh Pony
tissue: whole blood
developmental stage: foal
gender: female
weening type: brutal
time after weaning: 95 days
horse id: W708
|
| Treatment protocol |
5ml venous blood were collected from the 32 foals, 30 and 95 days after weaning, using vacuum tubes which included a reagent that immediately stabilized intracellular RNA (PAXgene blood RNA system, PreAnalytiX GmbH, Hombrechtikon, Switzerland). The samples were kept at room temperature for 8 h as required for stabilizing RNA and then at -20°C until RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with the PAXgene Blood RNA kit (Qiagen, Courtaboeuf, France) according to the manufacturer's protocol. Total RNA quality was assessed and its concentration was measured using RNA Nano chips onto a Bioanalyser 2100 (Agilent, Boeblingen, Germany).
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from 100 ng of DNase pre-treated (0.2μl DNase 10X, 0.4μl 10X Buffer DNase, 0.4μl RNasin 40U/μl, 3μl total RNA) total RNA using the One-Color Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions, followed by RNA clean-up using Agencourt RNAClean XP (Agencourt Bioscience Corporation, Beverly, Massachusetts). Dye incorporation and cRNA yield were checked using Dropsense™ 96 UV/VIS droplet reader (Trinean, Belgium).
|
| |
|
| Hybridization protocol |
600 ng of Cy3-labelled cRNA were hybridized on the microarray slides following the manufacturer’s instructions.
|
| Scan protocol |
Immediately after washing, the slides were scanned on Agilent G2505C Microarray Scanner using Agilent Scan Control A.8.5.1 software.
|
| Description |
Gene expression 95 days after brutal weaning in foal blood.
|
| Data processing |
The fluorescence signal was extracted using Agilent Feature Extraction software v10.10.1.1 with default parameters.
Raw data (median of pixels intensity) were filtered, log2 transformed, corrected for batch effects (washing and labeling serials) and normalized using quantile method.
|
| |
|
| Submission date |
Apr 17, 2017 |
| Last update date |
Feb 10, 2019 |
| Contact name |
Aline FOURY |
| E-mail(s) |
aline.foury@inrae.fr
|
| Organization name |
INRAE
|
| Lab |
NutriNeuro
|
| Street address |
146 rue Léo Saignat
|
| City |
Bordeaux |
| ZIP/Postal code |
33600 |
| Country |
France |
| |
|
| Platform ID |
GPL23307 |
| Series (2) |
| GSE97906 |
Effect of a progressive weaning on behavioural and physiologic indicators in foals (Equus caballus) |
| GSE97908 |
Effect of a progressive weaning on behavioural and physiologic indicators in foals and mares (Equus caballus) |
|
