{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,5,25]],"date-time":"2023-05-25T05:13:43Z","timestamp":1684991623376},"reference-count":22,"publisher":"Oxford University Press (OUP)","issue":"1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Parallel visualization of multiple individual human genomes is a complex endeavor that is rapidly gaining importance with the increasing number of personal, phased and cancer genomes that are being generated. It requires the display of variants such as SNPs, indels and structural variants that are unique to specific genomes and the introduction of multiple overlapping gaps in the reference sequence. Here, we describe GenPlay Multi-Genome, an application specifically written to visualize and analyze multiple human genomes in parallel. GenPlay Multi-Genome is ideally suited for the comparison of allele-specific expression and functional genomic data obtained from multiple phased genomes in a graphical interface with access to multiple-track operation. It also allows the analysis of data that have been aligned to custom genomes rather than to a standard reference and can be used as a variant calling format file browser and as a tool to compare different genome assembly, such as hg19 and hg38.<\/jats:p>\n               <jats:p>Availability and implementation: GenPlay is available under the GNU public license (GPL-3) from http:\/\/genplay.einstein.yu.edu . The source code is available at https:\/\/github.com\/JulienLajugie\/GenPlay<\/jats:p>\n               <jats:p>Contact: \u00a0eric.bouhassira@einstein.yu.edu or julien.lajugie@gmail.com<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu588","type":"journal-article","created":{"date-parts":[[2014,9,2]],"date-time":"2014-09-02T00:17:48Z","timestamp":1409617068000},"page":"109-111","source":"Crossref","is-referenced-by-count":5,"title":["GenPlay Multi-Genome, a tool to compare and analyze multiple human genomes in a graphical interface"],"prefix":"10.1093","volume":"31","author":[{"given":"Julien","family":"Lajugie","sequence":"first","affiliation":[{"name":"Department of Cell Biology, Albert Einstein College of Medicine, New York, NY 10461, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nicolas","family":"Fourel","sequence":"additional","affiliation":[{"name":"Department of Cell Biology, Albert Einstein College of Medicine, New York, NY 10461, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eric E.","family":"Bouhassira","sequence":"additional","affiliation":[{"name":"Department of Cell Biology, Albert Einstein College of Medicine, New York, NY 10461, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2014,8,31]]},"reference":[{"key":"2023020116152187000_btu588-B1","doi-asserted-by":"crossref","first-page":"708","DOI":"10.1101\/gr.1933104","article-title":"Aligning multiple genomic sequences with the threaded blockset aligner","volume":"14","author":"Blanchette","year":"2004","journal-title":"Genome Res."},{"key":"2023020116152187000_btu588-B2","doi-asserted-by":"crossref","DOI":"10.1002\/0471142727.mb1910s89","article-title":"Galaxy: a web-based genome analysis tool for experimentalists","author":"Blankenberg","year":"2010","journal-title":"Curr. 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Genet."},{"key":"2023020116152187000_btu588-B4","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1186\/1471-2105-13-8","article-title":"An integrative variant analysis suite for whole exome next-generation sequencing data","volume":"13","author":"Challis","year":"2012","journal-title":"BMC Bioinformatics"},{"key":"2023020116152187000_btu588-B5","doi-asserted-by":"crossref","first-page":"2156","DOI":"10.1093\/bioinformatics\/btr330","article-title":"The variant call format and VCFtools","volume":"27","author":"Danecek","year":"2011","journal-title":"Bioinformatics"},{"key":"2023020116152187000_btu588-B6","doi-asserted-by":"crossref","first-page":"e1002280","DOI":"10.1371\/journal.pgen.1002280","article-title":"Phased whole-genome genetic risk in a family quartet using a major allele reference sequence","volume":"7","author":"Dewey","year":"2011","journal-title":"PLoS Genet."},{"key":"2023020116152187000_btu588-B7","doi-asserted-by":"crossref","first-page":"344","DOI":"10.1186\/1471-2105-8-344","article-title":"Lightweight genome viewer: portable software for browsing genomics data in its chromosomal context","volume":"8","author":"Faith","year":"2007","journal-title":"BMC Bioinformatics"},{"key":"2023020116152187000_btu588-B8","doi-asserted-by":"crossref","DOI":"10.1002\/0471250953.bi0115s30","article-title":"Using the ensembl genome server to browse genomic sequence data","author":"Fernandez-Suarez","year":"2010","journal-title":"Curr. 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