| A gene expression atlas of the domestic pig. | |
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MedLine Citation:
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PMID: 23153189 Owner: NLM Status: In-Data-Review |
Abstract/OtherAbstract:
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BACKGROUND: This work describes the first genome-wide analysis of the transcriptional landscape of the pig. A new porcine Affymetrix expression array was designed in order to provide comprehensive coverage of the known pig transcriptome. The new array was used to generate a genome-wide expression atlas of pig tissues derived from 62 tissue/cell types. These data were subjected to network correlation analysis and clustering. RESULTS: The analysis presented here provides a detailed functional clustering of the pig transcriptome where transcripts are grouped according to their expression pattern, so one can infer the function of an uncharacterized gene from the company it keeps and the locations in which it is expressed. We describe the overall transcriptional signatures present in the tissue atlas, where possible assigning those signatures to specific cell populations or pathways. In particular, we discuss the expression signatures associated with the gastrointestinal tract, an organ that was sampled at 15 sites along its length and whose biology in the pig is similar to human. We identify sets of genes that define specialized cellular compartments and region-specific digestive functions. Finally, we performed a network analysis of the transcription factors expressed in the gastrointestinal tract and demonstrate how they sub-divide into functional groups that may control cellular gastrointestinal development. CONCLUSIONS: As an important livestock animal with a physiology that is more similar than mouse to man, we provide a major new resource for understanding gene expression with respect to the known physiology of mammalian tissues and cells. The data and analyses are available on the websites http://biogps.org and http://www.macrophages.com/pig-atlas. |
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Authors:
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Tom C Freeman; Alasdair Ivens; J Kenneth Baillie; Dario Beraldi; Mark W Barnett; David Dorward; Alison Downing; Lynsey Fairbairn; Ronan Kapetanovic; Sobia Raza; Andru Tomoiu; Ramiro Alberio; Chunlei Wu; Andrew I Su; Kim M Summers; Christopher K Tuggle; Alan L Archibald; David A Hume |
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Publication Detail:
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Type: Journal Article Date: 2012-11-15 |
Journal Detail:
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Title: BMC biology Volume: 10 ISSN: 1741-7007 ISO Abbreviation: BMC Biol. Publication Date: 2012 |
Date Detail:
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Created Date: 2012-11-16 Completed Date: - Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 101190720 Medline TA: BMC Biol Country: England |
Other Details:
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Languages: eng Pagination: 90 Citation Subset: IM |
Affiliation:
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The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, EH25 9PS, UK. tom.freeman@roslin.ed.ac.uk. |
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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