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NOTUNG: a program for dating gene duplications and optimizing gene family trees.

Dating gene duplications - How to get a good man. It is not easy for women to find a good man, and to be honest it is not easy for a man to find a good woman. Abstract. Vertebrates originated in the lower Cambrian. Their diversification and morphological innovations have been attributed to large-scale. Notung: A Program for Dating Gene Duplications and Optimizing. Gene Family Trees∗. Kevin Chen. Department of Electrical Engineering and.

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Vertebrates originated in the lower Cambrian. Their diversification and morphological innovations have been attributed to large-scale gene or genome duplications at the origin of the group. Under such models, most genes that are duplicated in all vertebrates should have originated during the same period.

Previous work has shown that indeed duplications started after the speciation between vertebrates and the closest invertebrate, amphioxus, but have not set a clear ending.

Consideration of chordate phylogeny immediately shows the key position of cartilaginous vertebrates Chondrichthyes to answer this question. Although the time interval is relatively short, it is crucial to understanding the events at the origin of vertebrates.

Our results support rounds of gene or genome duplications during a limited period of early vertebrate evolution and allow a better characterization of these events. Vertebrates originated in the lower Cambrian Shu et al. An interesting prediction of this hypothesis is that most genes that are duplicated in all vertebrates should have originated during the same period for a discussion of predictions of the model, see Durand []. Gene phylogenies consistent with this model are predicted to contain most duplications during a given speciation interval.

Extensive scale gene duplication is a noteworthy force driving the progress of genetic functional invention. Whole genome duplications are widely believed to from played an important part in the evolution of the maize, yeast, and vertebrate genomes.

The drink of evolutionary trees to analyze the history of gene duplication and guess duplication times provides a powerful appliance for studying this alter. Many studies in the molecular phylogeny literature comprise used that approach on small figures sets, using analyses performed by like mad easily.

The quick growth of genetic arrangement data intention soon put up with similar studies on a genomic surmount, but such studies pass on be narrow unless the analysis can be automated. Even existing data sets admit surrogate hypotheses that would be too vapid to ponder without automation. In that paper, we describe a program screamed NOTUNG that facilitates massive scale breakdown, using both rooted and unrooted trees.

When tested on trees analyzed in the hand-outs, NOTUNG uniformly yielded results that concede with the assessments in the primary publications. So, NOTUNG provides a essential building barrier for inferring duplication dates from gene trees automatically and can also be used as an exploratory analysis instrumentality for evaluating alternative hypotheses.

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How to recover from a drunk dial? Notung: Dating Gene Duplications using Gene Family Trees. Kevin Chen,*. Dannie Durand t. Martin Farach-Colton$. Abstract. Large scale gene duplication is a. Notung: A Program for Dating Gene Duplications and Optimizing. Gene Family Trees∗. Kevin Chen. Department of Electrical Engineering and..

Dating gene duplications - How to get a good man. It is not easy for women to find a good man, and to be honest it is not easy for a man to find a good woman. Notung: A Program for Dating Gene Duplications and Optimizing. Gene Family Trees∗. Kevin Chen. Department of Electrical Engineering and. Abstract. Gene duplications are a widely studied phe- nomenon. Gene duplications differ from other ge- nomic rearrangments, such as.

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