Statistical aspects in physical mapping application to the genome of O. oeni strain GM.
This work addresses issues around physical maps, in particular, for circular genomes. The overlapping relationship between two fragments obtained by applying two different restriction enzymes, separately, is classified as nonoverlapping, partial overlapping, and total overlapping. A double partial overlapping can also appear in a particular situation. Taking into account DNA fragment lengths and under the assumption that the left-hand endpoints of the two restriction fragments are independent random variables, each of which with a uniform distribution along a circular genome, we present expressions for prior probabilities of those events. This information is combined with hybridization data via Bayes' theorem, in order to evaluate corresponding posterior probabilities. Additionally, we explore a sensitivity analysis to quantify the effect of length variation in the results.
Gonçalves
Luzia
L
Instituto de Higiene e Medicina Tropical, Universidade Nova de Lisboa, Portugal.
Zé-Zé
Líbia
L
Pinheiro
Hildete Prisco
HP
Amaral-Turkman
Maria Antónia
MA
D000465:Algorithms; D001499:Bayes Theorem; D002874:Chromosome Mapping / Q000379:methods; D019295:Computational Biology / Q000379:methods*; D004262:DNA Restriction Enzymes / Q000378:metabolism; D016678:Genome; D016680:Genome, Bacterial; D007777:Lactobacillaceae / Q000235:genetics*; D008957:Models, Genetic; D015233:Models, Statistical; D008962:Models, Theoretical; D009693:Nucleic Acid Hybridization; D020161:Physical Chromosome Mapping; D015183:Restriction Mapping / Q000379:methods; D012680:Sensitivity and Specificity; D017422:Sequence Analysis, DNA
D004262:DNA Restriction Enzymes