Pea (Pisum sativum L.) is the oldest model object of plant genetics and one of the most agriculturally important legumes in the world. Since the pea genome has not been sequenced yet, identification of genes responsible for mutant phenotypes or desirable agricultural traits is usually performed via genetic mapping followed by candidate gene search. Such mapping is best carried out using gene-ba...

The HLA region is considered to be the main genetic risk factor for rheumatoid arthritis. Previous research demonstrated that HLA-DRB1 alleles encoding the shared epitope are specific for disease that is characterized by antibodies to cyclic citrullinated peptides (anti-CCP). In the present study, we incorporated the shared epitope and either anti-CCP antibodies or rheumatoid factor into linkag...

Localizing genes for quantitative traits by conventional recombination mapping is a formidable challenge because environmental variation, minor genes, and genetic markers have modifying effects on continuously varying phenotypes. We describe "lethal tagging," a method used in conjunction with deficiency mapping for localizing major genes associated with quantitative traits. Rover/sitter is a na...

We present a multilocus gene mapping method based on linkage disequilibrium, which uses the ancestral recombination graph to model the history of sequences that may harbor an influential variant. We describe the construction of a recurrence equation used to make inferences about the location of a trait-influencing mutation. We demonstrate how a Monte Carlo algorithm combined with a local import...

It is known that while the programs used to find genes in prokaryotic genomes reliably map protein-coding regions, they often fail in the exact determination of gene starts. This problem is further aggravated by sequencing errors, most notably insertions and deletions leading to frame-shifts. Therefore, the exact mapping of gene starts and identification of frame-shifts are important problems o...

RÉSUMÉ. Des modèles pour placer les données des familles de genes individuelles sur un arbre d'espèces évolutionnaires sont presentés. Une famille de gènes est, tipiquement, observée comme un ensemble de proteins homologue, qui appartient aux espèces differentes, qui veut dire que des données dans la forme de (a) une matrice de distance entre protéines, ou (b) un arbre de "gènes", dérivé de cet...

We describe a new method for linkage disequilibrium mapping, Haplotype Pattern Mining (HPM). The method is based on discovering recurrent patterns, inspired by data mining methods. We define a class of useful haplotype patterns in genetic case-control data, and give an algorithm for finding disease-associated haplotypes. The haplotypes are ordered by their strength of association to the phenoty...

Single nucleotide polymorphisms are the most important and basic form of variation in the genome, and they are responsible for genetic effects that produce susceptibility to most autoimmune diseases. The rapid development of databases containing very large numbers of single nucleotide polymorphisms, and the characterization of haplotypes and patterns of linkage disequilibrium throughout the gen...

expensive to provide these maps  with field measurements  therefore  it is better to use new methods. this study provides a lithological and alteration mapping units with dominant minerals based on hyperspectral images of eo1-hyperion satellite. to do so, two different zones  were  investigated:  the  cuprite-nevada  and  mozahem  volcano  in  iran  which  have suitable conditions for our study...

In the thesis, we present two statistical problems in gene mapping. First, we consider the problem of linkage disequilibrium (LD) mapping with haplotype block structure. The HapMap Project is providing a great deal of new information on high-resolution haplotype structure in various human populations. We consider LD mapping in case-parent trios under the assumption that haplotype blocks and the...