Large Disclosing the Nature of Computational Tools for the Analysis of Next Generation Sequencing Data

Author(s): Francesca Cordero, Marco Beccuti, Susanna Donatelli, Raffaele A. Calogero

Journal Name: Current Topics in Medicinal Chemistry

Volume 12 , Issue 12 , 2012

Become EABM
Become Reviewer
Call for Editor


Next-generation sequencing (NGS) technologies are rapidly changing the approach to complex genomic studies, opening the way to personalized drugs development and personalized medicine. NGS technologies are characterized by a massive throughput for relatively short-sequences (30-100), and they are currently the most reliable and accurate method for grouping individuals on the basis of their genetic profiles. The first and crucial step in sequence analysis is the conversion of millions of short sequences (reads) into valuable genetic information by their mapping to a known (reference) genome. New computational methods, specifically designed for the type and the amount of data generated by NGS technologies, are replacing earlier widespread genome alignment algorithms which are unable to cope with such massive amount of data.

This review provides an overview of the bioinformatics techniques that have been developed for the mapping of NGS data onto a reference genome, with a special focus on polymorphism rate and sequence error detection. The different techniques have been experimented on an appropriately defined dataset, to investigate their relative computational costs and usability, as seen from an user perspective.

Since NGS platforms interrogate the genome using either the conventional nucleotide space or the more recent color space, this review does consider techniques both in nucleotide and color space, emphasizing similarities and diversities.

Keywords: Next-generation sequence, mapping algorithms, color space and sequence space, bioinformatics techniques, nucleotide space, Sanger enzymatic dideoxy technique, high throughput screening, diarylquinolinebased drug, New gene-mapping techniques, NGS data analysis

Rights & PermissionsPrintExport Cite as

Article Details

Year: 2012
Published on: 25 June, 2012
Page: [1320 - 1330]
Pages: 11
DOI: 10.2174/156802612801319007
Price: $65

Article Metrics

PDF: 23