Ensembl Compara - CNB - Protein Design Group

More documents

Recommendations

Info

Jul 2007ORTHEUSan ancestral sequence inference programAddresses the inference of insertiondeletion historiesand substitution eventsStarts from a (multiple) alignment and assumes afixed treeReconstructs the ancestral sequences in the tree andrefines the input alignmentInsertion/deletion events are handled using a branchtransducer modelSubstitution are handled using TamuraNeinucleotide substitution modelAncestral sequence are inferred using weightedsequence graph
ORTHEUSBranch Transducer ModelFour transition parameters model:Insertion(cont.)Applied to a tree:Deletion(cont.)InsertionDeletionJul 2007Matches and insertion/deletion eventsare propagated down the tree
Page 5 and 6: Timeline 2 : Genomes9/01 Release wi
Page 7 and 8: Ensembl groupsJul 2007GeneBuilders:
Page 9 and 10: BilateriaNCBI Taxonomy for the 31sp
Page 11 and 12: Ensembl ComparaA single database wh
Page 13 and 14: Genomic AlignmentsBlastZNetused t
Page 15 and 16: Pecana consistency based multiple
Page 17 and 18: Encode ComparisonSPECIFICITYCOVERAG
Page 19 and 20: How to align suchlarge segments?New
Page 21: EnredoSolving the graphJul 2007Comm
Page 25 and 26: HomologyBRH/RHS pairs of speci
Page 27 and 28: Load Genes and LongestTranslation f
Page 29 and 30: Protein trees and homologyDuplicati
Page 31 and 32: Gene tree : 1st data assessmentGood
Page 33: Jul 2007

Ensembl Compara - CNB - Protein Design Group

Create successful ePaper yourself

Delete template?

Save as template?