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Home by Kees van Bochove, last updated: May 01, 2012 11:39 AM
Overview of the dbNP project
Demo by Kees van Bochove, last updated: May 01, 2012 11:14 AM
 
Metabolomics module by Janneke van der Ploeg, last updated: Feb 29, 2012 05:06 PM
 
Simple assay module 2.0 by Janneke van der Ploeg, last updated: Feb 29, 2012 05:06 PM
 
File UserGuide SAM by Janneke van der Ploeg, last updated: Feb 29, 2012 05:03 PM
 
Metagenomics module by Kees van Bochove, last updated: Feb 29, 2012 10:54 AM
Module for storing metagenomics sequencing data.
File dbnpmetagenomics2011bk310811.pdf by Kees van Bochove, last updated: Feb 29, 2012 10:52 AM
 
Modules overview by Kees van Bochove, last updated: Nov 07, 2011 02:13 PM
This page describes how DbNP modules communicate with the study capture module, which acts as a linking hub between study design and study data.
Detailed descriptions of RESTful services by Jahn Saito, last updated: Nov 07, 2011 02:13 PM
Detailed descriptions and example rest calls are given.
Trac by Kees van Bochove, last updated: Sep 29, 2011 09:36 AM
 
Data Formats by Jahn Saito, last updated: Aug 15, 2011 04:13 PM
Overview of standards and data formats supported or to be supported for data exchange with the dbNP.
File Gene-environment data relevant to metabolic syndrome phenotypes by Larry Parnell, last updated: May 24, 2011 04:18 PM
Data contained here were manually extracted after reading collected articles describing gene-environment (GxE) interactions restricted to statistical interactions in epidemiologic studies and were pertinent to phenotypes connected with metabolic syndrome. Data fields include Gene, SNP accession, aliases or common names of the SNP, risk allele, phenotype, environmental factor, condition of environmental factor, gender (in which the interaction was observed), population and PubMed ID. "Condition of environmental factor” gives the value of the environmental factor above or below which the GxE interaction was observed as passing statistical significance. Although P-values of GxE interactions are sensitive to characteristics of a particular study or population, P-values are not listed here. Only those GxE interactions described as statistically significant, generally with a P-value ≤ 0.05, were kept after literature mining. In addition, there are over 1400 examples where the test for a GxE interaction failed to reach statistical significance. No reports from studies involving children and adolescents were parsed for GxE data. The data table is taken from the open-access article Lee YC, Lai CQ, Ordovas JM, Parnell LD (2011) A database of gene-environment interactions pertaining to blood lipid traits, cardiovascular disease and type 2 diabetes. J Data Mining in Genom Proteomics 2:106. doi:10.4172/2153- 0602.1000106, which can be accessed at http://omicsonline.org/2153-0602/2153-0602-2-106.php
Clean Transcriptomics Database by Janneke van der Ploeg, last updated: Feb 25, 2011 03:27 PM
 
Genotype - phenotype - environment interactions module by Kees van Bochove, last updated: Jan 26, 2011 04:44 PM
Here one can find information and data pertaining to metabolic syndrome-relevant gene-environment interactions within the genetics module of the Nutritional Phenotype Database. This includes access to a curated data table of published gene-environment interactions, as described by Lee, Parnell, et al. (2011) J Data Mining Genomics Proteomics (in press).
Genetics module by Kees van Bochove, last updated: Jan 26, 2011 03:36 PM
 
Modules by Kees van Bochove, last updated: Jan 06, 2011 10:58 PM
 
Image SAM Assay Importer by Adem Bilican, last updated: Nov 25, 2010 09:13 AM
 
Simple Assay Module by Adem Bilican, last updated: Nov 25, 2010 09:13 AM
 
Image SAM Sub-Assay Importer by Adem Bilican, last updated: Nov 25, 2010 09:10 AM
 
Image SAM Sub-Assay Importer by Adem Bilican, last updated: Nov 25, 2010 09:06 AM
 
 
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