@article{christie_qtlxplorer_2021,
	title = {{qtlXplorer}: an online systems genetics browser in the {Eucalyptus} {Genome} {Integrative} {Explorer} ({EucGenIE})},
	volume = {22},
	issn = {1471-2105},
	shorttitle = {{qtlXplorer}},
	url = {https://doi.org/10.1186/s12859-021-04514-9},
	doi = {10/gnxfq5},
	abstract = {Affordable high-throughput DNA and RNA sequencing technologies are allowing genomic analysis of plant and animal populations and as a result empowering new systems genetics approaches to study complex traits. The availability of intuitive tools to browse and analyze the resulting large-scale genetic and genomic datasets remain a significant challenge. Furthermore, these integrative genomics approaches require innovative methods to dissect the flow and interconnectedness of biological information underlying complex trait variation. The Plant Genome Integrative Explorer (PlantGenIE.org) is a multi-species database and domain that houses online tools for model and woody plant species including Eucalyptus. Since the Eucalyptus Genome Integrative Explorer (EucGenIE) is integrated within PlantGenIE, it shares genome and expression analysis tools previously implemented within the various subdomains (ConGenIE, PopGenIE and AtGenIE). Despite the success in setting up integrative genomics databases, online tools for systems genetics modelling and high-resolution dissection of complex trait variation in plant populations have been lacking.},
	number = {1},
	urldate = {2021-12-29},
	journal = {BMC Bioinformatics},
	author = {Christie, Nanette and Mannapperuma, Chanaka and Ployet, Raphael and van der Merwe, Karen and Mähler, Niklas and Delhomme, Nicolas and Naidoo, Sanushka and Mizrachi, Eshchar and Street, Nathaniel R. and Myburg, Alexander A.},
	month = dec,
	year = {2021},
	keywords = {Co-expression, Database, EucGenIE, Eucalyptus, Genome browser, Online resource, Systems genetics, eQTL, qtlXplorer, ‘Omics integration},
	pages = {595},
}

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The availability of intuitive tools to browse and analyze the resulting large-scale genetic and genomic datasets remain a significant challenge. Furthermore, these integrative genomics approaches require innovative methods to dissect the flow and interconnectedness of biological information underlying complex trait variation. The Plant Genome Integrative Explorer (PlantGenIE.org) is a multi-species database and domain that houses online tools for model and woody plant species including Eucalyptus. Since the Eucalyptus Genome Integrative Explorer (EucGenIE) is integrated within PlantGenIE, it shares genome and expression analysis tools previously implemented within the various subdomains (ConGenIE, PopGenIE and AtGenIE). Despite the success in setting up integrative genomics databases, online tools for systems genetics modelling and high-resolution dissection of complex trait variation in plant populations have been lacking.","number":"1","urldate":"2021-12-29","journal":"BMC Bioinformatics","author":[{"propositions":[],"lastnames":["Christie"],"firstnames":["Nanette"],"suffixes":[]},{"propositions":[],"lastnames":["Mannapperuma"],"firstnames":["Chanaka"],"suffixes":[]},{"propositions":[],"lastnames":["Ployet"],"firstnames":["Raphael"],"suffixes":[]},{"propositions":["van","der"],"lastnames":["Merwe"],"firstnames":["Karen"],"suffixes":[]},{"propositions":[],"lastnames":["Mähler"],"firstnames":["Niklas"],"suffixes":[]},{"propositions":[],"lastnames":["Delhomme"],"firstnames":["Nicolas"],"suffixes":[]},{"propositions":[],"lastnames":["Naidoo"],"firstnames":["Sanushka"],"suffixes":[]},{"propositions":[],"lastnames":["Mizrachi"],"firstnames":["Eshchar"],"suffixes":[]},{"propositions":[],"lastnames":["Street"],"firstnames":["Nathaniel","R."],"suffixes":[]},{"propositions":[],"lastnames":["Myburg"],"firstnames":["Alexander","A."],"suffixes":[]}],"month":"December","year":"2021","keywords":"Co-expression, Database, EucGenIE, Eucalyptus, Genome browser, Online resource, Systems genetics, eQTL, qtlXplorer, ‘Omics integration","pages":"595","bibtex":"@article{christie_qtlxplorer_2021,\n\ttitle = {{qtlXplorer}: an online systems genetics browser in the {Eucalyptus} {Genome} {Integrative} {Explorer} ({EucGenIE})},\n\tvolume = {22},\n\tissn = {1471-2105},\n\tshorttitle = {{qtlXplorer}},\n\turl = {https://doi.org/10.1186/s12859-021-04514-9},\n\tdoi = {10/gnxfq5},\n\tabstract = {Affordable high-throughput DNA and RNA sequencing technologies are allowing genomic analysis of plant and animal populations and as a result empowering new systems genetics approaches to study complex traits. The availability of intuitive tools to browse and analyze the resulting large-scale genetic and genomic datasets remain a significant challenge. Furthermore, these integrative genomics approaches require innovative methods to dissect the flow and interconnectedness of biological information underlying complex trait variation. The Plant Genome Integrative Explorer (PlantGenIE.org) is a multi-species database and domain that houses online tools for model and woody plant species including Eucalyptus. Since the Eucalyptus Genome Integrative Explorer (EucGenIE) is integrated within PlantGenIE, it shares genome and expression analysis tools previously implemented within the various subdomains (ConGenIE, PopGenIE and AtGenIE). 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