Expression Database

GUDMAP:2185

Stage

Supplementary Data Files

Batch ID:

Principal Investigator(s)

Kevin Gaido, The Hamner Institutes of Health Sciences, Durham, NC, USA, gaido@thehamner.org

Submitted By

Kim Lehmann, The Hamner Institutes of Health Sciences, Durham, NC, USA, klehmann@thehamner.org

Specimen Details

Sample GEO ID:	GSM108564
Sample Description:	gd 11 whole testes and mesonephros
Sample Name:	Gaido_Testes_gd11_18_14Dec2005
Component(s) Sampled:	gonad primordium (EMAPS:1685718) ;mesonephros (EMAPS:1674418) ;
Organism:	Mus musculus
Tissue:	gonad primordium
Strain:	CD-1
Genotype:	wild type
Sex:	male
Development Age:	11 dpc
Stage:	TS18
Pooled Sample:	Yes
Pool Size:	2
Dissection Method:	Whole organ excision
Experiment Design:	CD-1 mice are time-mated within a 2 hour window. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are killed by decapitation with a scalpel. Fetal gonads are removed from fetuses at gestation days 11, 12, 14, 16, 18, and postnatal day 2, snap frozen in liquid nitrogen and stored at -80ºC.

Protocol Details

Extracted Molecule:	total RNA
A260:280 Ratio:	2.02
RNA Extraction Protocol:	Gaido protocol: 'RNA isolation from whole testes'
Target Amplification Manufacturer/kit:	NA
Target Amplification Protocol:	NA
Rounds of Amplification:	NA
Amount Labeled Target Hybridized To Array:	10 ug
Label:	Biotin
Label Protocol:
Array Hyb/Wash Protocol:	Affymetrix standard protocol (701021 Rev 4)
Scan Protocol:
GCOS Tgt Value:	500
Data Analysis Method:	Affymetrix GCOS and SAS Microarray Solutions
Reference:	P0.5 whole embryo RNA (4 male/4 female) provided by Steve Potter

Series Details

Series GEO ID:	GSE4818
Number of Samples:	21 samples
Title:	Gene expression profiling of whole testes in embryonic (gestational day 11, 12, 14, 16 & 18) and postnatal day 2 mice. (GUDMAP Series ID: 3)
Summary:	The overall objective of this proposal is to map the temporal and spatial dynamics of gene expression in the fetal mouse testis at key developmental timepoints. Urogenital tract malformations are the most common birth defects in males and their incidence together with other male reproductive health concerns such as reduced fertility and testicular cancer are reportedly on the rise in the human population. To better understand the impact of genetic factors and environmental influences on testicular development, it is important to first understand normal gene expression patterns and signaling cascades within the fetal testis during development. The goal of this study is to identify cell-specific genes that can be used as biomarkers for key differentiation events.
Type:	developmental time course
Overall Design:	Day to day comparison in whole testes throughout development with triplicates at each time point. Each sample is a pair of testes from a single animal and each animal is taken from a different dam.

Platform Details

Platform GEO ID:	GPL1261
Title:	Affymetrix GeneChip Mouse Genome 430 2.0 Array
Distribution:	commercial
Technology:	in situ oligonucleotide
Organism:	Mus musculus
Manufacturer:	Affymetrix
Manufacturer Protocol:	N/A
Catalogue Number:	N/A