title: MagicViewer: integrated solution for next-generation sequencing data visualization and genetic variation detection and annotation.
abstract: New sequencing technologies, such as Roche 454, ABI SOLiD and Illumina, have been increasingly developed at an astounding pace with the advantages of high throughput, reduced time and cost. To satisfy the impending need for deciphering the large-scale data generated from next-generation sequencing, an integrated software MagicViewer is developed to easily visualize short read mapping, identify and annotate genetic variation based on the reference genome. MagicViewer provides a user-friendly environment in which large-scale short reads can be displayed in a zoomable interface under user-defined color scheme through an operating system-independent manner. Meanwhile, it also holds a versatile computational pipeline for genetic variation detection, filtration, annotation and visualization, providing details of search option, functional classification, subset selection, sequence association and primer design. In conclusion, MagicViewer is a sophisticated assembly visualization and genetic variation annotation tool for next-generation sequencing data, which can be widely used in a variety of sequencing-based researches, including genome re-sequencing and transcriptome studies. MagicViewer is freely available at http://bioinformatics.zj.cn/magicviewer/.
authors.affiliation: Institute of Genomic Medicine, Wenzhou Medical College, Wenzhou 325035, China.
authors.forename: Huabin
authors.initials: H
authors.lastname: Hou
authors.forename: Fangqing
authors.initials: F
authors.lastname: Zhao
authors.forename: Linglin
authors.initials: L
authors.lastname: Zhou
authors.forename: Erle
authors.initials: E
authors.lastname: Zhu
authors.forename: Huajing
authors.initials: H
authors.lastname: Teng
authors.forename: Xiaokun
authors.initials: X
authors.lastname: Li
authors.forename: Qiyu
authors.initials: Q
authors.lastname: Bao
authors.forename: Jinyu
authors.initials: J
authors.lastname: Wu
authors.forename: Zhongsheng
authors.initials: Z
authors.lastname: Sun
mesh_terms: D003196:Computer Graphics; D014644:Genetic Variation; D023281:Genomics / Q000379:methods*; D054643:INDEL Mutation; D020407:Internet; D020641:Polymorphism, Single Nucleotide; D016415:Sequence Alignment; D017421:Sequence Analysis; D012984:Software; D018511:Systems Integration
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