title: TAG Sequence Identification of Genomic Regions Using TAGdb.
abstract: Second-generation sequencing (SGS) technology has enabled the sequencing of genomes and identification of genes. However, large complex plant genomes remain particularly difficult for de novo assembly. Access to the vast quantity of raw sequence data may facilitate discoveries; however the volume of this data makes access difficult. This chapter discusses the Web-based tool TAGdb that enables researchers to identify paired read second-generation DNA sequence data that share identity with a submitted query sequence. The identified reads can be used for PCR amplification of genomic regions to identify genes and promoters without the need for genome assembly.
authors.affiliation: School of Agriculture and Food Sciences, University of Queensland, Hartley Teakle Building 83, St. Lucia, QLD, 4072, Australia. p.ruperao@uq.edu.au.|School of Plant Biology, University of Western Australia, Perth, WA, 6009, Australia. p.ruperao@uq.edu.au.
authors.forename: Pradeep
authors.initials: P
authors.lastname: Ruperao
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D010944:Plants / Q000235:genetics; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D064878:Web Browser
keywords: Illumina; Orthologous sequence s; Promoter discovery; Second-generation sequencing