TERMINUS——未组装序列中的端粒末端读取挖掘
TERMINUS--Telomeric End-Read Mining IN Unassembled Sequences.
作者信息
Li Weixi, Rehmeyer Cathryn J, Staben Chuck, Farman Mark L
机构信息
Department of Biological Sciences, University of Kentucky, Lexington, KY 40546, USA.
出版信息
Bioinformatics. 2005 Apr 15;21(8):1695-8. doi: 10.1093/bioinformatics/bti181. Epub 2004 Dec 7.
UNLABELLED
TERMINUS is a set of tools to map telomeres on draft sequences of whole genome shotgun sequencing projects. It mines raw sequence reads (from a trace archive) for telomeric reads, assembles them into contigs representing individual chromosome ends and BLASTs the resulting consensus sequences against the genome assembly to identify telomere-proximal genomic contigs. Finally, it estimates the sizes of telomeric gaps and identifies clones for gap closure. TERMINUS is implemented as a set of Perl scripts that requires two sets of inputs: the NCBI Trace Archive files for a given genome project; and ancillary genome assembly information. Results are output in spreadsheets containing information that facilitates manual validation.
AVAILABILITY
The TERMINUS package and supplementary information can be downloaded from http://www.genome.kbrin.uky.edu/fungi_tel/terminus/
CONTACT
未标注
TERMINUS是一组用于在全基因组鸟枪法测序项目的草图序列上绘制端粒的工具。它从原始序列读数（来自trace存档）中挖掘端粒读数，将它们组装成代表单个染色体末端的重叠群，并将所得的共有序列与基因组组装进行BLAST比对，以识别端粒近端的基因组重叠群。最后，它估计端粒间隙的大小并识别用于间隙闭合的克隆。TERMINUS是作为一组Perl脚本实现的，需要两组输入：给定基因组项目的NCBI Trace存档文件；以及辅助基因组组装信息。结果以电子表格形式输出，其中包含便于人工验证的信息。
可用性
TERMINUS软件包和补充信息可从http://www.genome.kbrin.uky.edu/fungi_tel/terminus/下载。
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