Abstract：
:In this paper, a method for single individual haplotype (SIH) reconstruction using Asexual reproduction optimization (ARO) is proposed. Haplotypes, as a set of genetic variations in each chromosome, contain vital information such as the relationship between human genome and diseases. Finding haplotypes in diploid organisms is a challenging task. Experimental methods are expensive and require special equipment. In SIH problem, we encounter with several fragments and each fragment covers some parts of desired haplotype. The main goal is bi-partitioning of the fragments with minimum error correction (MEC). This problem is addressed as NP-hard and several attempts have been made in order to solve it using heuristic methods. The current method, AROHap, has two main phases. In the first phase, most of the fragments are clustered based on a practical metric distance. In the second phase, ARO algorithm as a fast convergence bio-inspired method is used to improve the initial bi-partitioning of the fragments in the previous step. AROHap is implemented with several benchmark datasets. The experimental results demonstrate that satisfactory results were obtained, proving that AROHap can be used for SIH reconstruction problem.
journal_name
Comput Biol Chemjournal_title
Computational biology and chemistryauthors
Olyaee MH,Khanteymoori Adoi
10.1016/j.compbiolchem.2017.12.005subject
Has Abstractpub_date
2018-02-01 00:00:00pages
1-10eissn
1476-9271issn
1476-928Xpii
S1476-9271(16)30536-9journal_volume
72pub_type
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