Comment[ArrayExpressAccession]	E-GEOD-34136
MAGE-TAB Version	1.1													
Public Release Date	2014-06-24
Investigation Title	Influence of intrauterine low protein diet on ductal morphogenesis of the rat mammary gland.													
Comment[Submitted Name]	Influence of intrauterine low protein diet on ductal morphogenesis of the rat mammary gland.
Experiment Description	Following intrauterine low protein diet, the lumbar mammary gland of control and low protein rats were removed for further analysis via genarray on day 21 and day 28 postpartum. Virgin female Wistar rats came from Charles River. Throughout pregnancy the NP rats received 25g/d of Altromin C1000 containing 17.0% protein, while LP animals were fed 25g/d of Altromin C1003 containing 8.8% protein. At birth, litter size was reduced to 6 females in both groups, which were left to suckle for 21 days. During lactation (d1-d21) and after weaning (d21-d28) NP and LP animals were fed a standard chow and tap water ad libitum. At d21 and d28 3 dams were sacrificed under isofluran narcosis. The lumbar mammary gland (4th and 5th pair) were removed and cleared of visible lymph nodes before snap-freezing in liquid nitrogen.													
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	Fahlbusch	Beinder	Faehrmann	Wachtveitl	Winterfeld	Hartner	Menendez-Castro	Rauh	Ruebner	Huebner	Noegel	Doerr	Rascher	Fahlbusch
Person First Name	Fabian	Lea	Nina	Rainer	Ilona	Andrea	Carlos	Manfred	Matthias	Hanna	Stephanie	Helmuth-Guenther	Wolfgang	Fabian
Person Mid Initials											C			B
Person Email	geo@ncbi.nlm.nih.gov													
Person Affiliation	UniversitM-CM-$t Erlangen													
Person Address	Kinder- und Jugendklinik, UniversitM-CM-$t Erlangen, Loschgestr. 15, Erlangen, Germany													
Person Roles	submitter													
Protocol Name	P-GSE34136-1	P-GSE34136-4	P-GSE34136-5	P-GSE34136-2	P-GSE34136-3	P-GSE34136-6								
Protocol Description	The Agilent Feature Extraction Software (FES 10.7.3.1 ) was used to read out and process the microarray image files. ID_REF =  VALUE = median normalized signal intensities	100 ng of each RNA was used as template to produce Cy3- labeled cRNA. The RNA samples were amplified and labeled using the Low Input Quick Amp Labeling Kit (Agilent Technologies) following the manufacturerM-bM-^@M-^Ys protocol.	Cy3 labeled cRNAs were hybridized overnight (17 hours, 65M-0C) to an Agilent Whole Rat Genome Oligo Microarrays (8x60K) using AgilentM-bM-^@M-^Ys recommended hybridization chamber and oven.Finally, microarrays were washed once with wash buffer 1 for 1 min at RT followed by a second wash with wash buffer 2 for 1 min at 37M-0C and a final wash step with acetonitrile for 30 sec at RT.	Virgin female Wistar rats came from Charles River. Throughout pregnancy the NP rats received 25g/d of Altromin C1000 containing 17.0% protein, while LP animals were fed 25g/d of Altromin C1003 containing 8.8% protein. At birth, litter size was reduced to 6 females in both groups, which were left to suckle for 21 days. During lactation (d1-d21) and after weaning (d21-d28) NP and LP animals were fed a standard chow and tap water ad libitum. At d21 and d28 3 dams were sacrificed under isofluran narcosis. The lumbar mammary gland (4th and 5th pair) were removed and cleared of visible lymph nodes before snap-freezing in liquid nitrogen. Samples were stored at -80M-0C until further processing. Abbreviations: NP= normal protein diet, LP= low protein diet, dol= day of life.	RNA was extracted using Trizol (Invitrogen) following manufacturer's instructions.	Fluorescence signals of the hybridized Agilent Microarrays were detected using AgilentM-bM-^@M-^Ys Microarray Scanner System (G2505C, Agilent Technologies, Palo Alto, USA).								
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	nucleic acid extraction protocol	array scanning protocol								
Experimental Factor Name	DIET													
Experimental Factor Type	diet													
Publication Title	Detection of Expressional Changes Induced by Intrauterine Growth Restriction in the Developing Rat Mammary Gland via Exploratory Pathways Analysis.													
Publication Author List	Beinder L, Faehrmann N, Wachtveitl R, Winterfeld I, Hartner A, Menendez-Castro C, Rauh M, Ruebner M, Huebner H, Noegel SC, Doerr HG, Rascher W, Fahlbusch FB													
PubMed ID	24955840													
Publication DOI	10.1371/journal.pone.0100504													
Comment[SecondaryAccession]	GSE34136													
Comment[GEOReleaseDate]	2014-06-24													
Comment[ArrayExpressSubmissionDate]	2011-12-05													
Comment[GEOLastUpdateDate]	2014-06-25													
Comment[AEExperimentType]	transcription profiling by array													
SDRF File	E-GEOD-34136.sdrf.txt