IGIPT - 整合基因组岛预测工具。

IGIPT - Integrated genomic island prediction tool.

作者信息

Jain Ruchi, Ramineni Sandeep, Parekh Nita

机构信息

Centre for Computational Natural Sciences and Bioinformatics International Institute of Information Technology, Gachibowli, Hyderabad, India.

出版信息

Bioinformation. 2011;7(6):307-10. doi: 10.6026/007/97320630007307. Epub 2011 Nov 20.

DOI:10.6026/007/97320630007307

PMID:22355227

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3280501/

Abstract

UNLABELLED

IGIPT is a web-based integrated platform for the identification of genomic islands (GIs). It incorporates thirteen parametric measures based on anomalous nucleotide composition on a single platform, thus improving the predictive power of a horizontally acquired region, since it is known that no single measure can absolutely predict a horizontally transferred region. The tool filters putative GIs based on standard deviation from genomic average and also provides raw output in MS excel format for further analysis. To facilitate the identification of various structural features, viz., tRNA integration sites, repeats, etc. in the vicinity of GIs, the tool provides option to extract the predicted regions and its flanking regions.

AVAILABILITY

The database is available for free at http://bioinf.iiit.ac.in/IGIPT/

摘要

未标注

IGIPT是一个基于网络的用于识别基因组岛（GIs）的综合平台。它在单个平台上整合了基于异常核苷酸组成的13种参数测量方法，从而提高了水平获得区域的预测能力，因为众所周知，没有单一的测量方法能够绝对预测水平转移区域。该工具基于与基因组平均值的标准差来筛选假定的基因组岛，并且还以MS Excel格式提供原始输出以供进一步分析。为便于识别基因组岛附近的各种结构特征，即tRNA整合位点、重复序列等，该工具提供了提取预测区域及其侧翼区域的选项。