title: GLOOME: gain loss mapping engine.
abstract: The evolutionary analysis of presence and absence profiles (phyletic patterns) is widely used in biology. It is assumed that the observed phyletic pattern is the result of gain and loss dynamics along a phylogenetic tree. Examples of characters that are represented by phyletic patterns include restriction sites, gene families, introns and indels, to name a few. Here, we present a user-friendly web server that accurately infers branch-specific and site-specific gain and loss events. The novel inference methodology is based on a stochastic mapping approach utilizing models that reliably capture the underlying evolutionary processes. A variety of features are available including the ability to analyze the data with various evolutionary models, to infer gain and loss events using either stochastic mapping or maximum parsimony, and to estimate gain and loss rates for each character analyzed.
  
  
  BACKGROUND
  Freely available for use at http://gloome.tau.ac.il/.
authors.affiliation: Department of Cell Research and Immunology, Tel-Aviv University, Tel Aviv 69978, Israel.
authors.forename: Ofir
authors.initials: O
authors.lastname: Cohen
authors.forename: Haim
authors.initials: H
authors.lastname: Ashkenazy
authors.forename: Frida
authors.initials: F
authors.lastname: Belinky
authors.forename: Dorothée
authors.initials: D
authors.lastname: Huchon
authors.forename: Tal
authors.initials: T
authors.lastname: Pupko
mesh_terms: D019295:Computational Biology / Q000379:methods*; D019143:Evolution, Molecular; D010802:Phylogeny; D012984:Software