Isabel C. Caballero

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A software suite KINALYZER reconstructs full-sibling groups without parental information using data from codominant marker loci such as microsatellites. KINALYZER utilizes a new algorithm for sibling reconstruction in diploid organisms based on combinatorial optimization. KINALYZER makes use of a Minimum 2-Allele Set Cover approach based on Mendelian(More)
Reconstruction of sibling relationships from genetic data is an important component of many biological applications. In particular, the growing application of molecular markers (microsatellites) to study wild populations of plant and animals has created the need for new computational methods of establishing pedigree relationships, such as sibgroups, among(More)
New technologies for collecting genotypic data from natural populations open the possibilities of investigating many fundamental biological phenomena, including behavior, mating systems, heritabilities of adaptive traits, kin selection, and dispersal patterns. The power and potential of genotypic information often rests in the ability to reconstruct(More)
Kinship analysis using genetic data is important for many biological applications, including many in conservation biology. Wide availability of microsatellites has boosted studies in wild populations that rely on the knowledge of kinship, particularly sibling relationships (sibship). While there exist many methods for reconstructing sibling relationships,(More)
Reconstruction from Genetic Markers W. Art Chaovalitwongse, Chun-An Chou Department of Industrial and Systems Engineering, Rutgers University, Piscataway, New Jersey 08854, USA, {wchaoval@rci.rutgers.edu, joechou@rci.rutgers.edu} Tanya Y. Berger-Wolf, Bhaskar DasGupta, Saad Sheikh Department of Computer Science, University of Illinois, Chicago, Illinois(More)
While full sibling group reconstruction from microsatellite data is a well studied problem, reconstruction of half sibling groups is much less studied, theoretically challenging, and a computationally intense problem. In this paper, we present two different formulations of the half-sib reconstruction problem and prove their NP-hardness. We also present(More)
While full-sibling group reconstruction from microsatellite data is a well-studied problem, reconstruction of half-sibling groups is much less studied, theoretically challenging, and computationally demanding. In this paper, we present a formulation of the half-sibling reconstruction problem and prove its APX-hardness. We also present exact solutions for(More)
Establishing family relationships, such as parentage and sibling relationships, can be extremely important in biological research, especially in wild species, as they are often key to understanding evolutionary, ecological, and behavioral processes. Because it is often not possible to determine familial relationships from field observations alone, the(More)
Among parasitic organisms, inbreeding has been implicated as a potential driver of host-parasite co-evolution, drug-resistance evolution and parasite diversification. Yet, fundamental topics about how parasite life histories impact inbreeding remain to be addressed. In particular, there are no direct selfing-rate estimates for hermaphroditic parasites in(More)
Negative effects of parasites on their hosts are well documented, but the proximate mechanisms by which parasites reduce their host's fitness are poorly understood. For example, it has been suggested that parasites might be energetically demanding. However, a recent meta-analysis suggests that they have statistically insignificant effects on host resting(More)