- WormQTLHD--a web database for linking human disease to natural variation data in C. elegans. [PMID: 24217915]
K Joeri van der Velde, Mark de Haan, Konrad Zych, Danny Arends, L Basten Snoek, Jan E Kammenga, Ritsert C Jansen, Morris A Swertz, Yang Li
Nucleic acids research 2014:42(Database issue)
9 Citations (Google Scholar as of 2016-02-28)
Abstract: Interactions between proteins are highly conserved across species. As a result, the molecular basis of multiple diseases affecting humans can be studied in model organisms that offer many alternative experimental opportunities. One such organism-Caenorhabditis elegans-has been used to produce much molecular quantitative genetics and systems biology data over the past decade. We present WormQTL(HD) (Human Disease), a database that quantitatively and systematically links expression Quantitative Trait Loci (eQTL) findings in C. elegans to gene-disease associations in man. WormQTL(HD), available online at http://www.wormqtl-hd.org, is a user-friendly set of tools to reveal functionally coherent, evolutionary conserved gene networks. These can be used to predict novel gene-to-gene associations and the functions of genes underlying the disease of interest. We created a new database that links C. elegans eQTL data sets to human diseases (34 337 gene-disease associations from OMIM, DGA, GWAS Central and NHGRI GWAS Catalogue) based on overlapping sets of orthologous genes associated to phenotypes in these two species. We utilized QTL results, high-throughput molecular phenotypes, classical phenotypes and genotype data covering different developmental stages and environments from WormQTL database. All software is available as open source, built on MOLGENIS and xQTL workbench.
- WormQTL--public archive and analysis web portal for natural variation data in Caenorhabditis spp. [PMID: 23180786]
L Basten Snoek, K Joeri Van der Velde, Danny Arends, Yang Li, Antje Beyer, Mark Elvin, Jasmin Fisher, Alex Hajnal, Michael O Hengartner, Gino B Poulin, Miriam Rodriguez, Tobias Schmid, Sabine Schrimpf, Feng Xue, Ritsert C Jansen, Jan E Kammenga, Morris A Swertz
Nucleic acids research 2013:41(Database issue)
18 Citations (Google Scholar as of 2016-02-28)
Abstract: Here, we present WormQTL (http://www.wormqtl.org), an easily accessible database enabling search, comparative analysis and meta-analysis of all data on variation in Caenorhabditis spp. Over the past decade, Caenorhabditis elegans has become instrumental for molecular quantitative genetics and the systems biology of natural variation. These efforts have resulted in a valuable amount of phenotypic, high-throughput molecular and genotypic data across different developmental worm stages and environments in hundreds of C. elegans strains. WormQTL provides a workbench of analysis tools for genotype-phenotype linkage and association mapping based on but not limited to R/qtl (http://www.rqtl.org). All data can be uploaded and downloaded using simple delimited text or Excel formats and are accessible via a public web user interface for biologists and R statistic and web service interfaces for bioinformaticians, based on open source MOLGENIS and xQTL workbench software. WormQTL welcomes data submissions from other worm researchers.