Greedy method for inferring tandem duplication history
نویسندگان
چکیده
منابع مشابه
Greedy method for inferring tandem duplication history
MOTIVATION Genome analysis suggests that tandem duplication is an important mode of evolutionary novelty by permitting one copy of each gene to drift and potentially to acquire a new function. With more and more genomic sequences available, reconstructing duplication history has received extensive attention recently. RESULTS An efficient method is presented for inferring the duplication histo...
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Motivation: Genomes are replete with short sequences repeated consecutively called tandem repeats. Reconstructing duplication histories for tandem repeats may yield valuable insights into their functions and the biological mechanisms of tandem repeat creation and extension. Results: we design and implement a set of heuristic algorithms for reconstructing tandem duplication history with neighbor...
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Much important evolutionary activity occurs in gene clusters, where a copy of a gene may be free to evolve new functions. Computational methods to extract evolutionary information from sequence data for such clusters are currently imperfect, in part because accurate sequence data are often lacking in these genomic regions, making the existing methods difficult to apply. We describe a new method...
متن کاملReconstructing the Duplication History of a Tandem Repeat
One of the less well understood mutational transformations that act upon DNA is tandem duplication. In this process, a stretch of DNA is duplicated to produce two or more adjacent copies, resulting in a tandem repeat. Over time, the copies undergo additional mutations so that typically, multiple approximate tandem copies are present. An interesting feature of tandem repeats is that the duplicat...
متن کاملEstimation of the Duplication History under a Stochastic Model for Tandem Repeats
We present a stochastic model for tandem duplication and substitution mutations that can be used to estimate relative mutation rates and the total number of mutations from a single sequence. Important parameters of the model include the probability of a substitution mutation and the probabilities of tandem duplications of various lengths. Our model indicates that if the probability of substitut...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2003
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btg191