TITLE:
Genome sequencing and next-generation sequence data analysis: A comprehensive compilation of bioinformatics tools and databases
AUTHORS:
Jose C. Jimenez-Lopez, Emma W. Gachomo, Sweta Sharma, Simeon O. Kotchoni
KEYWORDS:
Databases; Computational Biology; Genomics; Proteomics; Next-Generation Sequencing
JOURNAL NAME:
American Journal of Molecular Biology,
Vol.3 No.2,
April
30,
2013
ABSTRACT: Genomics has become a ground-breaking field in all
areas of the life sciences. The advanced genomics and the development of
high-throughput techniques have lately provided insight into whole-genome characterization of a wide range of organisms. In the post-genomic era, new
technologies have revealed an outbreak of prerequisite genomic sequences and
supporting data to understand genome wide functional regulation of gene
expression and metabolic pathways reconstruction. However, the availability
of this plethora of genomic data presents a significant challenge for
storage, analyses and data management. Analysis of this mega-data requires the
development and application of novel bioinformatics tools that must include
unified functional annotation, structural search, and comprehensive analysis
and identification of new genes in a wide range of species with fully sequenced
genomes. In addition, generation of systematically and syntactically
unambiguous nomenclature systems for genomic data across species is a crucial
task. Such systems are necessary for adequate handling genetic information in the context of comparative functional
genomics. In this paper, we provide an overview of major advances in
bioinformatics and computational biology in genome sequencing and
next-generation sequence data analysis. We
focus on their potential applications for efficient collection, storage,
and analysis of genetic data/information from a wide range of gene banks. We
also discuss the importance of establishing a unified nomenclature system
through a functional and structural genomics approach.