Comment[ArrayExpressAccession]	E-GEOD-51530
MAGE-TAB Version	1.1						
Public Release Date	2013-10-23
Investigation Title	Expression data from adult mouse testis exposed to cigarette smoke in utero						
Comment[Submitted Name]	Expression data from adult mouse testis exposed to cigarette smoke in utero
Experiment Description	In the context of male reproductive health, epidemiological studies have observed reduced testis size and abnormal sperm counts and morphology in adult men exposed in utero, although these findings are not always repeated. The ambiguity of these reports is confounded by a lack of controlled animal studies investigating the effects of maternal cigarette smoke exposure on male offspring reproductive health. In this study we examined the effects of cigarette induced reproductive toxicity on male offspring exposed during the gestational and weaning period using our novel direct nasal exposure mouse model of cigarette smoke-induced chronic obstructive pulmonary disease and female subfertility. This was done too gain a better understanding of the adverse effects of gestational maternal smoking on male offspring fertility. C57BL/6 5 week-old female mice were exposed via the nose-only to cigarette smoke [twelve 3R4F reference cigarettes (University of Kentucky, USA) twice/day, five times per week, for 12-18 weeks]. Each exposure lasted 60 minutes. Control mice received room air. In total, 27 mice underwent cigarette smoke exposure. Eleven week-old female mice exposed to cigarette smoke for 6 weeks were separated into groups of three and housed with a single control stud male aged 7-8 weeks with proven fertility for a maximum of 12 weeks. Females were monitored every second day for post-coital plugs and pregnancy. Pregnant females were separated into single cages and litter sizes/pup weights recorded. Smoke exposure via dams continued throughout mating/pregnancy/lactation until weaning of pups at 21days post birth. The testis of exposed offspring were then collected for RNA extraction and hybridization on an Illumina Sentrix Mouse ref-8 v2 Beadchip						
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl					
Person Last Name	Sobinoff	Sobinoff	McLaughlin				
Person First Name	Alexander	Alexander	Eileen				
Person Mid Initials	Peter	P	A				
Person Email	c3045119@uon.edu.au						
Person Affiliation	University of Newcastle Australia						
Person Address	Science and IT, University of Newcastle Australia, University Drive, Newcastle, NSW, Australia						
Person Roles	submitter						
Protocol Name	P-GSE51530-1	P-GSE51530-5	P-GSE51530-6	P-GSE51530-2	P-GSE51530-3	P-GSE51530-4	P-GSE51530-7
Protocol Description	The data were normalised using quantile normalisation using BioConductor (v.2.12.)'s lumi package in R statistical software ID_REF =  VALUE = Quantile normalized signal intensity	Biotinylated cRNA were prepared with Ambion's Illumina RNA Amplification kit for Illumina arrays	Standard Illumina hybridization protocol	C57BL/6 5 week-old female mice were exposed via the nose-only to cigarette smoke [twelve 3R4F reference cigarettes (University of Kentucky, USA) twice/day, five times per week, for 12-18 weeks]. Each exposure lasted 60 minutes. Control mice received room air. In total, 27 mice underwent cigarette smoke exposure. Eleven week-old female mice exposed to cigarette smoke for 6 weeks were separated into groups of three and housed with a single control stud male aged 7-8 weeks with proven fertility for a maximum of 12 weeks. Females were monitored every second day for post-coital plugs and pregnancy. Pregnant females were separated into single cages and litter sizes/pup weights recorded. Smoke exposure via dams continued throughout mating/pregnancy/lactation until weaning of pups at 21days post birth.	All experimental procedures involving the use of animals were performed with the approval of the University of NewcastleM-bM-^@M-^Ys Animal Care and Ethics Committee (ACEC). Specific pathogen-free adult female (6-week-old) C57BL/6 mice were obtained from the animal services unit and maintained according to the recommendations prescribed by the ACEC. Mice were housed under a controlled lighting regime (16L:8D) at 21M-bM-^@M-^S22M-0C and supplied with food and water ad libitum.	Total RNA (approximately 3 M-5g) was isolated from adult ovaries using a QIAGEN RNeasy Mini Kit (Hilden, Germany) in accordance with the manufacturerM-bM-^@M-^Ys recommendations.	Standard Illumina scanning protocol
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	EXPOSED TO						
Experimental Factor Type	exposed to						
Comment[SecondaryAccession]	GSE51530						
Comment[GEOReleaseDate]	2013-10-23						
Comment[ArrayExpressSubmissionDate]	2013-10-22						
Comment[GEOLastUpdateDate]	2013-10-24						
Comment[AEExperimentType]	transcription profiling by array						
Comment[AdditionalFile:Data1]	GSE51530_Comparison2_Testis.xlsx						
Comment[AdditionalFile:Data2]	GSE51530_non_normalized.txt						
SDRF File	E-GEOD-51530.sdrf.txt