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Sample GSM1832633 Query DataSets for GSM1832633
Status Public on Jul 25, 2015
Title Female placenta Biol. Rep. 3
Sample type RNA
 
Channel 1
Source name AFP3
Organism Mus musculus
Characteristics group: APA
Sex: Female
strain: Swiss Webster
Treatment protocol Female mice were rapidly sacrificed by cervical dislocation
Growth protocol To obtain pregnancies, virgin females aged 3-months-old were mated with either 3-month-old (young paternal age group; 3 pairs) or 15-months-old (advanced paternal age group; 3 pairs) virgin sires. After that pregnancies were detected by the presence of a vaginal plug, males were removed and each dam was singly housed and allowed to deliver spontaneously. If no plug was detected after overnight male–female encountering, the female was removed and replaced by another, to avoid any possible effects of longer contact with the male. The morning, when the plug was detected was designed as Embryonic day 0.5 (E0.5).
Extracted molecule total RNA
Extraction protocol RNA was extracted using column-based Nucleospin miRNA (Machary-Nagel) according to manufacturer protocol
Label Cy3
Label protocol RNA was labeled using Two-Color Low Input Quick Amp Labeling Kits (Agilent) according to manufacturer's protocol
 
Channel 2
Source name CFP3
Organism Mus musculus
Characteristics group: Control
Sex: Female
strain: Swiss Webster
Treatment protocol Female mice were rapidly sacrificed by cervical dislocation
Growth protocol To obtain pregnancies, virgin females aged 3-months-old were mated with either 3-month-old (young paternal age group; 3 pairs) or 15-months-old (advanced paternal age group; 3 pairs) virgin sires. After that pregnancies were detected by the presence of a vaginal plug, males were removed and each dam was singly housed and allowed to deliver spontaneously. If no plug was detected after overnight male–female encountering, the female was removed and replaced by another, to avoid any possible effects of longer contact with the male. The morning, when the plug was detected was designed as Embryonic day 0.5 (E0.5).
Extracted molecule total RNA
Extraction protocol RNA was extracted using column-based Nucleospin miRNA (Machary-Nagel) according to manufacturer protocol
Label Cy5
Label protocol RNA was labeled using Two-Color Low Input Quick Amp Labeling Kits (Agilent) according to manufacturer's protocol
 
 
Hybridization protocol cRNA was hybridized using Gene Expression Hybridization Kit (Agilent). Hybridized microarrays were washed using standard Washing Buffer kit (Agilent). All procedures were performed according to manufacturer's protocol
Scan protocol Data were extracted using G2565CA Microarray Scanner (Agilent, USA) and Agilent Feature Extraction Software (Agilent, USA) on default settings (GE2_1010_Sep10).
Data processing Background correction method normexp was used and followed by loess method for within array normalization. Between array normalization was performed with the Aquantile method. Mean values of channels intensities were taken as an input and a median of background signal for background correction calculations.
 
Submission date Jul 24, 2015
Last update date Jul 25, 2015
Contact name Adrian Mateusz Stankiewicz
E-mail(s) adrianstankiewicz85@gmail.com
Organization name Institute of Genetics and Animal Breeding of the Polish Academy of Sciences
Department Animal Behaviour
Street address Jastrzebiec, ul. Postepu 36A
City Magdalenka
State/province Mazovia
ZIP/Postal code 05-552
Country Poland
 
Platform ID GPL10333
Series (1)
GSE71322 Placental transcriptomic pattern of murine advanced paternal age model of autism

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio representing test/reference

Data table
ID_REF VALUE
1 0.412790843
2 0.464552861
3 0.597653771
4 0.698289229
5 0.40529858
6 0.861501854
7 1.647736288
8 0.616832024
9 0.515604726
10 0.739741784
11 0.745583714
12 -0.34595458
13 0.124530135
14 0.698117065
15 -0.159209486
16 0.002961888
17 0.065378875
18 -0.193687058
19 0.525209359
20 1.695631602

Total number of rows: 44397

Table truncated, full table size 786 Kbytes.




Supplementary file Size Download File type/resource
GSM1832633_3p.txt.gz 15.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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