title: CsSNP: A Web-Based Tool for the Detecting of Comparative Segments SNPs.
abstract: SNP (single nucleotide polymorphism) is a popular tool for the study of genetic diversity, evolution, and other areas. Therefore, it is necessary to develop a convenient, utility, robust, rapid, and open source detecting-SNP tool for all researchers. Since the detection of SNPs needs special software and series steps including alignment, detection, analysis and present, the study of SNPs is limited for nonprofessional users. CsSNP (Comparative segments SNP, http://biodb.sdau.edu.cn/cssnp/ ) is a freely available web tool based on the Blat, Blast, and Perl programs to detect comparative segments SNPs and to show the detail information of SNPs. The results are filtered and presented in the statistics figure and a Gbrowse map. This platform contains the reference genomic sequences and coding sequences of 60 plant species, and also provides new opportunities for the users to detect SNPs easily. CsSNP is provided a convenient tool for nonprofessional users to find comparative segments SNPs in their own sequences, and give the users the information and the analysis of SNPs, and display these data in a dynamic map. It provides a new method to detect SNPs and may accelerate related studies.
authors.affiliation: 1 Key Laboratory of Crop Biology of China, Shandong Agricultural University , Taian, China .
authors.forename: Yi
authors.initials: Y
authors.lastname: Wang
authors.affiliation: 2 College of Plant Protection, Shandong Agricultural University , Taian, China .
authors.forename: Shuangshuang
authors.initials: S
authors.lastname: Wang
authors.affiliation: 2 College of Plant Protection, Shandong Agricultural University , Taian, China .
authors.forename: Dongjie
authors.initials: D
authors.lastname: Zhou
authors.affiliation: 2 College of Plant Protection, Shandong Agricultural University , Taian, China .
authors.forename: Shuai
authors.initials: S
authors.lastname: Yang
authors.affiliation: 2 College of Plant Protection, Shandong Agricultural University , Taian, China .
authors.forename: Yongchao
authors.initials: Y
authors.lastname: Xu
authors.affiliation: 1 Key Laboratory of Crop Biology of China, Shandong Agricultural University , Taian, China .
authors.forename: Chao
authors.initials: C
authors.lastname: Yang
authors.affiliation: 2 College of Plant Protection, Shandong Agricultural University , Taian, China .|3 Agricultural Big-Data Research Center, Shandong Agricultural University , Taian, China .
authors.forename: Long
authors.initials: L
authors.lastname: Yang
mesh_terms: D030541:Databases, Genetic; D018745:Genome, Plant; D020407:Internet; D010944:Plants / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
keywords: comparative genome; single nucleotide polymorphism; web-based software