Open Access Highly Accessed Research article

Genetic and environmental pathways to complex diseases

Julia M Gohlke1, Reuben Thomas1, Yonqing Zhang2, Michael C Rosenstein3, Allan P Davis3, Cynthia Murphy3, Kevin G Becker2, Carolyn J Mattingly3 and Christopher J Portier1*

Author Affiliations

1 Environmental Systems Biology Group, Laboratory of Molecular Toxicology, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA

2 Gene Expression and Genomics Unit, National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA

3 Department of Bioinformatics, Mount Desert Island Biological Laboratory, Old Bar Harbor Road, Salisbury Cove, ME 04672, USA

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BMC Systems Biology 2009, 3:46  doi:10.1186/1752-0509-3-46

Published: 5 May 2009

Additional files

Additional file 1:

Phenotype annotation of Genetic Association Database. The spreadsheet provides original phenotype names from the Genetic Association Database mapped to the annotated phenotype names used in the present analysis.

Format: XLS Size: 357KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 2:

Annotation of nodes illustrated in Figure 3. The spreadsheet provides full chemical name annotation of the MeSH ID labels of nodes shown in Figure 3 as well as mapping to the 9 broad categories shown as colors in Figure 3.

Format: XLS Size: 163KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 3:

Annotation of metabolic syndrome and neuropsychiatric subnetworks. The spreadsheet provides phenotypes and full chemical name annotation of the MeSH ID labels of nodes found within the 2 encircled subnetworks diagrammed in Figure 3.

Format: XLS Size: 29KB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 4:

DiRE results for gene expression datasets described in Table 1. Full output from the DiRE program showing enriched tfbs for each of the microarray datasets represented in Figure 4.

Format: XLS Size: 53KB Download file

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Additional file 5:

Comparison of results for Alzheimer's disease, Parkinson's disease and schizophrenia based on GAD or Genome Wide Association studies. Full sets of genes found to be associated with Alzheimer's disease, Parkinson's disease, or schizophrenia based either on the GAD databse or a database only representing results from Genome Wide Association studies.

Format: XLS Size: 34KB Download file

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Additional file 6:

Collapsed transcription factor binding site (tfbs) annotation based on similarity in matrices found in TRANSFAC. A file containing original TRANSFAC matrix names collapsed to annotated matrix names used in the current analysis.

Format: XLS Size: 42KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data