Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data
We propose a data-driven reverse engineering approach to isolate the components of a gene interaction and regulatory network. We apply this method to the construction of a network for bovine skeletal muscle. Key nodes in the network include muscle-specific genes and transcription factors, muscle-specific genes are identified from data mining the USA National Cancer Institute, Cancer Genome Anatomy Project database, while transcription factors are predicted by accurate function annotation. A total of 5 microarray studies spanning 78 hybridisations and 23 different experimental conditions provided raw expression data. A recently-reported analytical method based on multivariate mixed-model equations is used to compute gene co-expression measures across 624 genes. The resulting network included 102 genes (of which 40 were muscle-specific genes and 7 were transcription factors) that clustered in 7 distinct modules with clear biological interpretation. © CSIRO 2005.
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2005
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dig-inia-es-10261-2944192023-02-20T10:38:33Z Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data Reverter, A. Barris, W. Moreno-Sánchez, N. McWilliam, S. Wang, Y. H. Harper, G. S. Lehnert, S. A. Dalrymple, B. P. We propose a data-driven reverse engineering approach to isolate the components of a gene interaction and regulatory network. We apply this method to the construction of a network for bovine skeletal muscle. Key nodes in the network include muscle-specific genes and transcription factors, muscle-specific genes are identified from data mining the USA National Cancer Institute, Cancer Genome Anatomy Project database, while transcription factors are predicted by accurate function annotation. A total of 5 microarray studies spanning 78 hybridisations and 23 different experimental conditions provided raw expression data. A recently-reported analytical method based on multivariate mixed-model equations is used to compute gene co-expression measures across 624 genes. The resulting network included 102 genes (of which 40 were muscle-specific genes and 7 were transcription factors) that clustered in 7 distinct modules with clear biological interpretation. © CSIRO 2005. 2023-02-20T10:38:33Z 2023-02-20T10:38:33Z 2005 conference object Australian Journal of Experimental Agriculture 45(8): 821-829 (2005) 0816-1089 http://hdl.handle.net/20.500.12792/3695 http://hdl.handle.net/10261/294419 10.1071/EA05039 en none CSIRO Publishing |
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We propose a data-driven reverse engineering approach to isolate the components of a gene interaction and regulatory network. We apply this method to the construction of a network for bovine skeletal muscle. Key nodes in the network include muscle-specific genes and transcription factors, muscle-specific genes are identified from data mining the USA National Cancer Institute, Cancer Genome Anatomy Project database, while transcription factors are predicted by accurate function annotation. A total of 5 microarray studies spanning 78 hybridisations and 23 different experimental conditions provided raw expression data. A recently-reported analytical method based on multivariate mixed-model equations is used to compute gene co-expression measures across 624 genes. The resulting network included 102 genes (of which 40 were muscle-specific genes and 7 were transcription factors) that clustered in 7 distinct modules with clear biological interpretation. © CSIRO 2005. |
format |
conference object |
author |
Reverter, A. Barris, W. Moreno-Sánchez, N. McWilliam, S. Wang, Y. H. Harper, G. S. Lehnert, S. A. Dalrymple, B. P. |
spellingShingle |
Reverter, A. Barris, W. Moreno-Sánchez, N. McWilliam, S. Wang, Y. H. Harper, G. S. Lehnert, S. A. Dalrymple, B. P. Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
author_facet |
Reverter, A. Barris, W. Moreno-Sánchez, N. McWilliam, S. Wang, Y. H. Harper, G. S. Lehnert, S. A. Dalrymple, B. P. |
author_sort |
Reverter, A. |
title |
Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
title_short |
Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
title_full |
Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
title_fullStr |
Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
title_full_unstemmed |
Construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
title_sort |
construction of gene interaction and regulatory networks in bovine skeletal muscle from expression data |
publisher |
CSIRO Publishing |
publishDate |
2005 |
url |
http://hdl.handle.net/20.500.12792/3695 http://hdl.handle.net/10261/294419 |
work_keys_str_mv |
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