Rose: generating sequence families. | Zendy

Jens Stoye | Zendy; Dorothea Evers | Zendy; Folker Meyer | Zendy

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Rose: generating sequence families.

Author(s) -

Jens Stoye,

Dorothea Evers,

Folker Meyer

Publication year - 1998

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/14.2.157

Subject(s) - sequence (biology) , phylogenetic tree , computer science , tree (set theory) , multiple sequence alignment , probabilistic logic , mutation , computational biology , sequence alignment , biology , genetics , artificial intelligence , mathematics , peptide sequence , gene , combinatorics

We present a new probabilistic model of the evolution of RNA-, DNA-, or protein-like sequences and a software tool, Rose, that implements this model. Guided by an evolutionary tree, a family of related sequences is created from a common ancestor sequence by insertion, deletion and substitution of characters. During this artificial evolutionary process, the 'true' history is logged and the 'correct' multiple sequence alignment is created simultaneously. The model also allows for varying rates of mutation within the sequences, making it possible to establish so-called sequence motifs.

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