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Sample GSM2735431 Query DataSets for GSM2735431
Status Public on Jun 01, 2018
Title Venous blood_d34_ctrl_4560
Sample type RNA
 
Source name female_control_whole blood
Organism Gallus gallus
Characteristics chicken id: chicken 4560
gender: female
age: 34 days after birth
sample group: control
tissue: whole, venous blood
Treatment protocol For 24h after leaving the hatchery, the chicks were kept without food and water in containers and subjected to a lower room temperature (22°C = cold vs 27°C = control) and shaking movements mimicking transport. Control animals were not be subjected to stressors after leaving the hatchery and were placed in standard rearing conditions. Venous blood was collected from the 24 chicks 34 days after laying, using vacuum tubes with EDTA. 100µl of whole blood were diluted in 1ml of trizol. After a strong shaking and 5 mn of incubation at RT, the tubes were frozen in liquid nitrogen and stored at -80°C until extraction.
Extracted molecule total RNA
Extraction protocol Before extraction, 10µl of acetic acid 5N was added in each tube. Total RNA was extracted with TRIzol reagent (Invitrogen) according to the manufacturer’s protocol.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 200 ng of total RNA using the One-Color Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions, followed by 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 SAMPLE 7
Data processing The fluorescence signal extracted using Agilent Feature Extraction software v10.10.1.1 with default parameters.
Raw data (median signal intensity) were filtered, log2 transformed, and normalized using quantile method.
 
Submission date Aug 08, 2017
Last update date Jun 01, 2018
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 GPL19630
Series (1)
GSE102358 Spontaneous intake of essential oils after a negative postnatal experience has long-term effects on blood transcriptome in chickens

Data table header descriptions
ID_REF
VALUE log2 normalized

Data table
ID_REF VALUE
5 7.531548331
8 11.75336346
9 8.546466172
10 13.36311187
11 8.727447962
12 7.325165697
13 9.921709611
14 12.86509629
16 9.619092441
17 7.517606077
18 10.57366424
19 10.86196076
20 5.264107495
21 7.23882964
22 5.911981489
23 5.563198799
24 5.197282043
25 5.922624202
26 9.247730011
27 5.628977466

Total number of rows: 52892

Table truncated, full table size 915 Kbytes.




Supplementary file Size Download File type/resource
GSM2735431_US10463851_254200410026_S01_GE1_1010_Sep10_1_3.txt.gz 11.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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