ePrints@IIScePrints@IISc Home | About | Browse | Latest Additions | Advanced Search | Contact | Help

PanGeT: Pan-genomics tool

Yuvaraj, Iyyappan and Sridhar, Jayavel and Michael, Daliah and Sekar, Kanagaraj (2017) PanGeT: Pan-genomics tool. In: GENE, 600 . pp. 77-84.

This is the latest version of this item.

[img] PDF
Gen_600_77-84_2017.pdf - Published Version
Restricted to Registered users only

Download (1MB) | Request a copy
Official URL: http://dx.doi.org/10.1016/j.gene.2016.11.025

Abstract

A decade after the concept of Pan-genome was first introduced; research in this field has spread its tentacles to areas such as pathogenesis of diseases, bacterial evolutionary studies and drug resistance. Gene content-based differentiation of virulent and a virulent strains of bacteria and identification of pathogen specific genes is imperative to understand their physiology and gain insights into the mechanism of genome evolution. Subsequently, this will aid in identifying diagnostic targets and in developing and selecting vaccines. The root of pan-genomic studies, however, is to identify the core genes, dispensable genes and strain specific genes across the genomes belonging to a clade. To this end, we have developed a tool, ``PanGeT - Pan-genomics Tool'' to compute the `pan-genome' based on comparisons at the genome as well as the proteome levels. This automated tool is implemented using LaTeX libraries for effective visualization of overall pan-genome through graphical plots. Links to retrieve sequence information and functional annotations have also been provided. PanGeT can be downloaded from http://pranag.physics.iisc.ernetin/PanGeT/ or https://github.com/PanGeTvl/PanGeT. (C) 2016 Elsevier B.V. All rights reserved.

Item Type: Journal Article
Additional Information: Copy right for this article belongs to the ELSEVIER SCIENCE BV, PO BOX 211, 1000 AE AMSTERDAM, NETHERLANDS
Department/Centre: Division of Interdisciplinary Research > Supercomputer Education & Research Centre
Depositing User: Id for Latest eprints
Date Deposited: 01 Oct 2018 15:01
Last Modified: 01 Oct 2018 15:01
URI: http://eprints.iisc.ac.in/id/eprint/60827

Available Versions of this Item

Actions (login required)

View Item View Item