Data Set Group2: MDC/CAS/UCL Liver 230v2 (Dec08) RMA

Data Set: MDC/CAS/UCL Liver 230v2 (Dec08) RMA GN Accession: GN222 GEO Series: No Geo series yet Title: Genome-wide co-expression analysis in multiple tissues. Organism: Rat (Rattus norvegicus, mRatBN7.2/rn7) Group: HXBBXH Tissue: Liver mRNA Dataset Status: Public Platforms: Affy Rat Genome 230 v2.0 (GPL1355) Normalization: RMA

Contact Information Timothy Aitman Imperial College London Imperial College London, South Kensington Campus, London SW7 2AZ London, London 2AZ UK Tel. 44 (0)20 3313 4253 t.aitman@imperial.ac.uk Website Download datasets and supplementary data files GN222_MeanDataAnnotated_rev081815.txt (N/A) GN222_StdError_rev081815.txt (N/A)

Specifics of this Data Set:

None

Summary:

Genome-wide co-expression analysis in multiple tissues. And see closely associate set of papers: Integrated transcriptional profiling and linkage analysis for identification of genes underlying disease. Heritability and tissue specificity of expression quantitative trait loci. Integrated genomic approaches implicate osteoglycin (Ogn) in the regulation of left ventricular mass. New insights into the genetic control of gene expression using a Bayesian multi-tissue approach. The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance. A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk. Integrated genomic approaches to identification of candidate genes underlying metabolic and cardiovascular phenotypes in the spontaneously hypertensive rat. Systems-level approaches reveal conservation of trans-regulated genes in the rat and genetic determinants of blood pressure in humans.

About the cases used to generate this set of data:

About the tissue used to generate this set of data:

About the array platform:

Affymetrix 230Av2 GeneChip: Expression data were generated using the Affymetrix 230Av2 array (GEO_GPL341). The chromosomal locations of probe sets were determined by BLAT analysis of concatenated probe sequences using the Rat Genome Sequencing Consortium assembly.

About data values and data processing:

Notes:

Experiment Type:

Contributor:

Grieve IC1, Dickens NJ, Pravenec M, Kren V, Hubner N, Cook SA, Aitman TJ, Petretto E, Mangion J. Author information 1MRC Clinical Sciences Centre, Imperial College, Hammersmith Hospital, London, United Kingdom.

Citation:

PLoS One. 2008;3(12):e4033. doi: 10.1371/journal.pone.0004033. Epub 2008 Dec 29.

Data source acknowledgment:

This work was supported with funds to TJA by the MRC Clinical Sciences Centre, the British Heart Foundation, and the Wellcome Trust Cardiovascular Functional Genomics Initiative; to NH from the German Ministry for Science and Education (National Genome Research Network); to MP and Vladimir Kren from the Grant Agency of the Czech Republic; to MP and TJA from the Wellcome Trust Collaborative Research Initiative grant, to Theodore W Kurtz from the NIH, to TWK and MP from a Fogarty International Research Collaboration Award. Microarrays were a generous donation of Affymetrix Inc. Michal Pravenec thanks the Howard Hughes Medical Institute for its support to him as an international research scholar.

Study Id:

70

• The UT Center for Integrative and Translational Genomics
• NIGMS Systems Genetics and Precision Medicine project (R01 GM123489, 2017-2021)
• NIDA NIDA Core Center of Excellence in Transcriptomics, Systems Genetics, and the Addictome (P30 DA044223, 2017-2022)
• NIA Translational Systems Genetics of Mitochondria, Metabolism, and Aging (R01AG043930, 2013-2018)
• NIAAA Integrative Neuroscience Initiative on Alcoholism (U01 AA016662, U01 AA013499, U24 AA013513, U01 AA014425, 2006-2017)
• NIDA, NIMH, and NIAAA (P20-DA 21131, 2001-2012)
• NCI MMHCC (U01CA105417), NCRR, BIRN, (U24 RR021760)