Proposal of a New Method for de Novo DNA Sequence Assembly Using de Bruijn Graphs

被引：0
|
作者：
Couto, Adriano Donato [1 ]
Cerqueira, Fabio Ribeiro [1 ]
Ferreira, Ricardo dos Santos [1 ]
Oliveira, Alcione de Paiva [1 ]
机构：
[1] Univ Fed Vicosa, Dept Informat, BR-36570900 Vicosa, MG, Brazil
来源：
INFORMATION SCIENCES AND SYSTEMS 2015 | 2016年 / 363卷
关键词：
DNA sequence assembly; de Bruijn graphs; k-mer graphs; Graph algorithms; Bioinformatics; LARGE GENOMES; ALGORITHMS;
D O I：
10.1007/978-3-319-22635-4_28
中图分类号：
TP301 [理论、方法];
学科分类号：
081202 ;
摘要：
In this work, we propose a method where all main concerns in the construction of a DNA sequence assembler is encompassed in a single computational approach. The graph that represents sequences and their relationships is broken into simpler components through a matching approach on bipartite graphs, which we show to be very suitable for parallelism. Next, a simple heuristic is used to combine the components into long paths in the graph, which correspond to contigs in the genome. Experiments with five datasets have shown high quality assemblies.
引用
收藏
页码：307 / 317
页数：11
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