title: GFFview: A Web Server for Parsing and Visualizing Annotation Information of Eukaryotic Genome.
abstract: Owing to wide application of RNA sequencing (RNA-seq) technology, more and more eukaryotic genomes have been extensively annotated, such as the gene structure, alternative splicing, and noncoding loci. Annotation information of genome is prevalently stored as plain text in General Feature Format (GFF), which could be hundreds or thousands Mb in size. Therefore, it is a challenge for manipulating GFF file for biologists who have no bioinformatic skill. In this study, we provide a web server (GFFview) for parsing the annotation information of eukaryotic genome and then generating statistical description of six indices for visualization. GFFview is very useful for investigating quality and difference of the de novo assembled transcriptome in RNA-seq studies.
authors.affiliation: 1 Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University , Chengdu, China .
authors.forename: Feilong
authors.initials: F
authors.lastname: Deng
authors.affiliation: 1 Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University , Chengdu, China .
authors.forename: Shi-Yi
authors.initials: SY
authors.lastname: Chen
authors.affiliation: 2 Department of Environment and Life Science, Sichuan Minzu College , Kangding, China .
authors.forename: Zhou-Lin
authors.initials: ZL
authors.lastname: Wu
authors.affiliation: 3 Chengdu Agricultural College , Chengdu, China .
authors.forename: Yongsong
authors.initials: Y
authors.lastname: Hu
authors.affiliation: 1 Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University , Chengdu, China .
authors.forename: Xianbo
authors.initials: X
authors.lastname: Jia
authors.affiliation: 1 Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University , Chengdu, China .
authors.forename: Song-Jia
authors.initials: SJ
authors.lastname: Lai
mesh_terms: D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D056890:Eukaryota / Q000235:genetics*; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D058977:Molecular Sequence Annotation; D059467:Transcriptome; D064878:Web Browser
keywords: GFF; GTF; genome annotation; visualization; web server