Investigation Title Transcription profiling of whole lungs from mice expressing an inducible dominant negative BMPR2 transgene to study the effect of BMPR2 on gene expression. Comment[Submitted Name] Loss of BMPR2 Signaling in Smooth Muscle in Mouse Lung Experimental Design time_series_design individual_genetic_characteristics_design sex_design co-expression_design transcription profiling by array Experimental Design Term Source REF mo mo mo EFO Comment[ArrayExpressReleaseDate] 2007-11-27 Comment[SecondaryAccession] GSE5255 Comment[AEMIAMESCORE] 4 Comment[SecondaryAccession] GDS2147 Comment[ArrayExpressAccession] E-GEOD-5255 Comment[MAGETAB TimeStamp_Version] 2010-08-06 15:52:14 Last Changed Rev: 13058 Experimental Factor Name Sex Genotype Time Experimental Factor Type sex genotype time Experimental Factor Term Source REF Person Last Name West Person First Name James Person Mid Initials Person Email james.west@uchsc.edu Person Phone Person Fax Person Address Cardiovascular-Pulmonary Research, Medicine, University of Colorado Health Sciences Center, 4200 E 9TH Ave, Box B133, Denver, 80262, USA Person Affiliation University of Colorado Health Sciences Center Person Roles submitter Person Roles Term Source REF Quality Control Type Quality Control Term Source REF Replicate Type Replicate Term Source REF Normalization Type Normalization Term Source REF Date of Experiment Public Release Date 2007-11-27 PubMed ID 17369292 Publication DOI 17369292 Publication Author List Tada Y, Majka S, Carr M, Harral J, Crona D, Kuriyama T, West J Publication Title Molecular effects of loss of BMPR2 signaling in smooth muscle in a transgenic mouse model of PAH Publication Status journal_article Publication Status Term Source REF The MGED Ontology Experiment Description Mice expressing a doxycycline-inducible dominant negative BMPR2 transgene expressed only in smooth muscle are activated for one or eight weeks, and compared to transactivator-only mice also fed doxycycline. All mice are 12 weeks of old at sacrifice. Experiment Overall Design: Each chip is a pool of three individual mice, to reduce variability. The transactivator-only mice are controls. The other mice all had elevated RV pressures at time of sacrifice. RNA was prepared from whole lung. Protocol Name P-G5255-1 P-G5255-2 P-G5255-3 Protocol Type nucleic_acid_extraction labeling hybridization Protocol Description Lung tissues were flash-frozen in liquid nitrogen within minutes of death, and RNA extracted using an RNeasy kit (Qiagen) First and second strand complimentary DNA was synthesized using standard techniques. Biotin-labeled antisense complimentary RNA was produced by an in vitro transcription reaction. Mouse Genome 430 2.0 microarrays (Affymetrix, Foster City, CA) were hybridized with 20 μg cRNA. Target hybridization, washing, staining, and scanning probe arrays were done following an Affymetrix GeneChip Expression Analysis Manual. Protocol Parameters Protocol Hardware Protocol Software Protocol Contact Protocol Term Source REF The MGED Ontology SDRF File E-GEOD-5255.sdrf.txt Term Source Name NCI_thesaurus EFO ncbitax The MGED Ontology ArrayExpress mo EFO The MGED Ontology Term Source File ncithesaurus.obo.alt http://www.ebi.ac.uk/efo/ http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html http://mged.sourceforge.net/ontologies/MGEDontology.php http://www.ebi.ac.uk/arrayexpress http://mged.sourceforge.net/ontologies/MGEDontology.php http://www.ebi.ac.uk/efo/ http://mged.sourceforge.net/ontologies/MGEDontology.php Term Source Version