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—programme [2017/02/15 23:55] (current) – created Cécile Pereira
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 +=====Monday 25th May 2015 =====
 +
 +Erik Sonnhammer
 +"Summary of past QfO achievements and open issues"
 +
 +=====Lightning Talks=====
 +
 +Paul Thomas (University of Southern California, USA) 
 +“Toward a common resource for protein-coding gene families”
 +
 +Martin Steinegger (Max Planck Institute, Spain) 
 +“The MMseqs suite for fast and sensitive batch searching and clustering of huge protein sequence sets”
 +
 +Damian Szklarczyk (SIB / University of Zurich, Switzerland) 
 +“Interolog predictions in STRING using eggNOG”
 +
 +Hirokazu Chiba (National Institute for Basic Biology, Japan) 
 +“Applying RDF/SPARQL to ortholog databases”
 +
 +Jeremy Levy (UCL, United Kingdom)  
 +“Comparison of CEGMA, single-copy OrthoMCL, and OMA for the construction of supermatrices in species phylogenetic analyses”
 +
 +Claire McWhite (University of Texas at Austin, USA) 
 +“Ortholog profiling”
 +
 +Steven Müller (University College London GEE, United Kingdom)
 +“FamilyAnalyser - Getting the best out of your OrthoXML”  
 +
 +Ivana Piližota (University College London, United Kingdom) 
 +“Speeding-­up homology inference”
 +
 +Clement Train (ETH ZURICH, Dessimoz group, Switzerland) 
 +“Efficiently Inferring Hierarchical Orthologous Groups in a Large Comparative Genomics Setup”
 +
 +Henning Redestig (Bayer Cropscience, Belgium) 
 +“Using the OMA orthology database to navigate crop proteomes”
 +
 +Erik Sonnhammer (Stockholm University, Sweden) 
 +“New InParanoid developments”
 +
 +Nives Skunca (ETH, Switzerland) 
 +“Comparison of different strategies for predicting function in the OMA database”
 +
 +Natasha Glover (UCL and BayerCropScience, Belgium) 
 +“Homeologs: What are they? How to infer them? What are they useful for?”
 +
 +====Open Plenary Lecture====
 +
 +Eugene V Koonin (NIH, USA)
 +“Orthology: the shifting cornerstone of genomics”
 +
 +=====Poster session sponsored by Illumina=====
 +    
 +=====Tuesday 26th May=====
 +
 +=====Session "Orthology methods and resource advances I"=====
 +
 +Salvador Capella-Gutierrez (CRG, Spain) 
 +"PhylomeDB: where every protein has its tree."
 +
 +El-Mabrouk Nadia (University of Montreal, Canada) 
 +“Orthology and paralogy relations versus Gene trees: Agreement, Correction and Optimality.”
 +
 +Mateus Patricio (EBI, United Kingdom) 
 +“TreeFam: HMM classification of hundreds of genomes across Ensembl and Ensembl genomes”
 +
 +Evgenia Kriventseva (UniGe, SIB, Switzerland) 
 +“OrthoDB in 2015: scaling up the data and the user experience.” 
 +
 +Jaime Huerta-Cepas (Embl, Germany) 
 +“EggNOG 2015”
 +
 +Mateusz Kaduk (Stockholm University, Sweden) 
 +“Improving Hieranoid: hierarchical orthology inference” 
 +
 +=====Session "Shared resources in the orthology community"=====
 +
 +Boeckmann Brigitte (Swiss-Prot group, SIB, Switzerland) 
 +“Quest for Orthologs (QfO) entails Quest for Tree of Life (QfToL): in Search of the Gene Stream”
 +
 +Alan Sousa da Silva (EMBL-EBI, United Kingdom)
 +“The new extended UniProt Reference Proteomes and its implications for the QfO”
 +
 +Jesualdo Tomás Fernández-Breis (Universidad de Murcia, Spain) 
 +“Efforts in the semantic standardization of orthology content”
 +
 +=====Session "Orthology methods and resource advances II"=====
 +
 +Sergei Mekhedov (ATTAIN, USA) 
 +“Orthology redefined: Clusters of orthologous domains in Eukaryotes”
 +
 +Ikuo Uchiyama (National Institute for Basic Biology, Japan) 
 +“New developments in MBGD: incorporation of draft genome data and refinement of domain-level ortholog identification ”
 +
 +Adrian Altenhoff (SIB, Switzerland) 
 +“SIBLINGs: sharing all-against-all comparison across orthology projects”
 +
 +Odile Lecompte (iCUBE, Université de Strasbourg, France) 
 +“MyGeneFriends: a social network linking genes, diseases and researchers”
 +
 +Cedric Notredame (CRG, Spain) 
 +“Growing taller phylogenetic trees on structural compost”
 +
 +
 +=====Discussion Session=====
 +moderators Erik Sonnhammer, Christophe Dessimoz
 +
 +=====Session “From evolution to function”=====
 +
 +Bethan Yates (HUGO Gene Nomenclature Committee, EMBL-EBI, United Kingdom) 
 +“HGNC Efforts To Standardise Gene Nomenclature Across Vertebrate Genomes.”
 +
 +Cécile Pereira (Université Pairs-Sud, France) 
 +“A meta-approach for improving the prediction and the functional annotation of ortholog groups”
 +
 +Benjamin Liebeskind (University of Texas at Austin, USA) 
 +“Orthologous systems and human disease.”
 +
 +Suzanna Lewis (Lawrence Berkeley National Laboratory, USA) 
 +"Phylogeny-driven approaches to protein function determination."
 +
 +Shigehiro Kuraku (RIKEN Center for Life Science Technologies, Japan)
 +“Assessing vertebrate homolog space - from EvoDevo viewpoint”
 +
 +Klaas Vandepoele (Department of Plant Biotechnology and Bioinformatics (WE09), Ghent University, Belgium) 
 +“Hunting the unknown: gene function prediction in plants using comparative genomics and next-generation sequencing data analysis”
 +
 +
 +=====Discussion Session=====
 +Moderators Toni Gabaldon, Paul Thomas