Association methods based on linkage disequilibrium (LD) offer a promising approach for
detecting genetic variations that are responsible for complex human diseases. Although …

The investigation of genetic differences among humans has given evidence that mutations
in DNA sequences are responsible for some genetic diseases. The most common mutation …

The enormous complexity of biological systems at the molecular level must be answered
with powerful computational methods. Computational biology is a young field, but has seen …

Bioinformatics regularly poses new challenges to algorithm engineers and theoretical
computer scientists. This work surveys recent developments of parameterized algorithms …

In 2003, Gusfield introduced the haplotype inference by pure parsimony (HIPP) problem and
presented an integer program (IP) that quickly solved many simulated instances of the …

One of the main topics in genomics is to determine the relevance of DNA variations with
some genetic disease. Single nucleotide polymorphism (SNP) is the most frequent and …

We study the parsimony approach to haplotype inference, which calls for finding a set of
haplotypes of minimum cardinality that explains an input set of genotypes. We prove that the …

In this paper, we consider the problem of covering a set of strings S with a set C of substrings
in S, where C is said to cover S if every string in S can be written as a concatenation of the …

The fast development of sequencing techniques in the recent past has required an urgent
development of efficient and accurate haplotype inference tools. Besides being a crucial …

Abstract Background Using Next Generation Sequencing, SNP discovery is relatively easy
on diploid species and still hampered in polyploid species by the confusion due to …