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Symmetry 2017, 9(9), 192; https://doi.org/10.3390/sym9090192

A Robust Method for Finding the Automated Best Matched Genes Based on Grouping Similar Fragments of Large-Scale References for Genome Assembly

1
Department of General Education, Hongik University, Seoul 04066, Korea
2
Department of Biology, Chungnam National University, Daejeon 34134, Korea
3
Department of Multimedia Engineering, Dongguk University, Seoul 04620, Korea
*
Author to whom correspondence should be addressed.
Received: 9 August 2017 / Revised: 8 September 2017 / Accepted: 11 September 2017 / Published: 13 September 2017
(This article belongs to the Special Issue Emerging Approaches and Advances in Big Data)
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Abstract

Big data research on genomic sequence analysis has accelerated considerably with the development of next-generation sequencing. Currently, research on genomic sequencing has been conducted using various methods, ranging from the assembly of reads consisting of fragments to the annotation of genetic information using a database that contains known genome information. According to the development, most tools to analyze the new organelles’ genetic information requires different input formats such as FASTA, GeneBank (GB) and tab separated files. The various data formats should be modified to satisfy the requirements of the gene annotation system after genome assembly. In addition, the currently available tools for the analysis of organelles are usually developed only for specific organisms, thus the need for gene prediction tools, which are useful for any organism, has been increased. The proposed method—termed the genome_search_plotter—is designed for the easy analysis of genome information from the related references without any file format modification. Anyone who is interested in intracellular organelles such as the nucleus, chloroplast, and mitochondria can analyze the genetic information using the assembled contig of an unknown genome and a reference model without any modification of the data from the assembled contig. View Full-Text
Keywords: gene; gene annotation; contig; NGS; organelle genome; gene search gene; gene annotation; contig; NGS; organelle genome; gene search
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Jung, J.; Kim, J.I.; Jeong, Y.-S.; Yi, G. A Robust Method for Finding the Automated Best Matched Genes Based on Grouping Similar Fragments of Large-Scale References for Genome Assembly. Symmetry 2017, 9, 192.

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