| Session 1: Physical Mapping and Sequencing Session Chairs: Joseph Jen and Deb Hamernik | |
| 09:30 - 09:45 | Allan Bradley, Director, WTSI Welcome and Introductory Comments |
| 09:45 - 10:00 | Lawrence Schook, U. of Illinois Back to the Future: Creating a Path Forward for Harvesting the Pig Genome |
| 10:00 - 10:30 | Richard Clark, WTSI The Pig Genome Sequencing Project |
| 10:30 - 11:00 | Denis Milan, INRA, Toulouse An integrated physical map of the pig genome (see abstract 62) |
| 11:00 - 11:15 | Tea Break |
| 11:15 - 11:45 | Hirohide Uenishi, National Institute of Agrobiological Sciences Pig genome sequencing in Japan: shotgun sequencing of SGSC BAC clones and more (Abstract 9) |
| Shengting Li, Beijing Genomics Institute Solexa sequencing for pig used on Gap closure and SNP calling for Sanger BAC sequences (Abstract 67) | |
| 11:45 - 12:15 | João Fadista, Aarhus University Genome-wide assessment of porcine structural variation (Abstract 20) |
| Chris Tuggle, Iowa State University ANEXdb: An Integrated Animal ANnotation and Microarray EXpression Database (Abstract 12) | |
| 12:30 - 14:00 | Lunch and Poster Session 1 |
| Session 2: Sequence Assembly and Annotation Session Co-Chairs: Alan Archibald & Patrick Chardon | |
| 14:00 - 14:30 | Alan Archibald, U. of Edinburgh Assembly and annotation of the pig genome |
| 14:30 - 15:00 | Jan Gorodkin, U of Copenhagen Noncoding (ncRNA) in mammalian genomes (see abstract 53) |
| 15:00 - 15:30 | Alfonso Valencia, Spanish National Cancer Research Centre Protein function annotation at the genome level |
| 15:30 - 16:00 | Ning Li, Beijing Genomics Institute Pig genome assembly applying new-generation sequencing method (Abstract 46) |
| Henrik Hornshøj, Aarhus University Prediction of splice junctions and exon-skipping events in porcine tissues from alignments of next-generation RNA short reads to the genome sequence (Abstract 27) | |
| 16:00 - 16:30 | Tea Break |
| Session 3: Biodiversity and Evolution Session Co-Chairs: Greger Larson and Martien Groenen | |
| 16:30 - 17:00 | Greger Larson, Durham University Biodiversity of global suiformes |
| 17:00 - 17:30 | Martien Groenen, Wageningen University Porcine genome HapMap (see abstract 52) |
| 17:30 - 18:00 | Ana Fernández, INIA, Madrid Divergence time estimates of East Asian and European pigs based on multiple near complete mitochondrial DNA sequences (Abstract 64) |
| Ning Li, Chines Agricultural University Insights into genetic structure of sus scrofa populations: traces of human activities (Abstract 68) | |
| 18:00 - 19:00 | MC Meeting |
| Session 4: Genome Regulation Session Chairs: Merete Fredholm & Leif Andersson | |
| 08:30 - 09:00 | Leif Andersson, Uppsala University The birth of a new transcription factor in placental mammals |
| 09:00 - 09:30 | Soren Brunak, Technical University of Denmark Systematic study of complex interactions in biological systems |
| 09:30 - 10:15 | Agnieszka Podolska, University of Copenhagen MicroRNA expression profiling in the porcine developing brain (Abstract 1) |
| Shuhong Zhao, Huazhong Agricultural University Discovery Of Porcine MicroRNAs In Multiple Tissues By Solexa Deep Sequencing Approach (Abstract 31) | |
| Danielle Gorbach, Iowa State University Fatness Genes and Segmental Duplications in Pigs (Abstract 8) | |
| 10:15 - 10:45 | Tea Break |
| 10:45 - 11:15 | M Matousková, Institute of Molecular Genetics, Prague Low DNA methylation as a marker of active Porcine Endogenous Retroviruses (Abstract 50) |
| Yu Gao, INRA/CEA, Jouy-en-Josas Transcription map and annotation of the swine leukocyte antigen complex: a high-density oligonucleotide tiling array approach (Abstract 13) | |
| 11:15 - 11:45 | Juan Steibel, Mighigan State University Integration of genomic sequence information, DNA markers and transcript abundance data reveals cis and trans acting eQTL in pigs (Abstract 3) |
| A Stinckens, KULeuven Interactions between genes involved in growth and muscularity in pigs: Insulin-like growth factor-2, Myostatin, Ryanodine receptor 1 and Melanocortin-4 receptor (Abstract 65) | |
| 12:00 - 14:00 | Lunch and Posters |
| Session 5: Comparative Genomics Session Co-Chairs: Denis Milan and Craig Beattie | |
| 14:00 - 14:30 | Chris Ponting, MRC Functional Genetics Unit, Oxford |
| 14:30 - 15:00 | Harris Lewin, U. of Illinois The Pig's Place on the Mammalian Comparative Map |
| 15:00 - 15:30 | Craig Beattie, U. of Illinois Can Comparative Genomics Assist in the Improvement of the Swine Genome Map? (Abstract 57) |
| Carole Sargent, University of Cambridge Why the Y? (Abstract 23) | |
| 15:30 - 16:00 | Tea Break |
| Session 6: Industrial Applications Session Co-Chairs: Elisabetta Giuffra and Peter Burfening | |
| 16:00 - 16:30 | Jan Merks, IPG A genetics company perspective |
| 16:30 - 17:30 | Mark Boggess, NPB A pork industry perspective |
| 17:30 - 18:00 | Max Rothschild, Iowa State University A genome-wide association study for pig production and feet and leg structure traits using the PorcineSNP60 BeadChip (Abstract 6) |
| Mary Clapperton, University of Edinburgh Use of SNP association analysis to detect regions on the pig genome associated with immune traits (Abstract 18) | |
| 18:00 - 18:15 | Ioanna Stavridou, COST Overview of COST and FA Domain |
| 18:15 | Reception and Banquet |
| Session 7: Biological and Biomedical Insights Session Chairs: Randy Prather and Larry Schook | |
| 08:30 - 09:00 | Randy Prather, U. of Missouri Building blocks for creating models: Sequence, Transgenesis and Cloning |
| 09:00 - 09:30 | Michel Georges, University of Liege Searching for genetic determinants underlying variation in global and local recombination rate in cattle |
| 09:30 - 10:15 | Yasu Takeuchi, University College London Porcine endogenous retrovirus (PERV) integration polymorphism (Abstract 14) |
| Jordi Estelle, INRA/CEA Jouy-en-Josas High-density SNP genotyping of the SSC13 QTL region for melanoma predisposition in the MeLiM biomedical swine model (Abstract 16) | |
| 10:15 - 10:45 | Tea Break |
| 10:45 - 11:15 | Merete Fredholm, University of Copenhagen Characterization of phenotypically similar murine and porcine models of human lung emphysema (Abstract 24) |
| Claire Quilter, University of Cambridge Porcine maternal infanticide: An association study (Abstract 22) | |
| 11:15 - 11:45 | Bernhard Kuster, Technische Universität München Identification of coding regions in the pig genome using high-throughput peptide sequencing by mass spectrometry (Abstract 71) |
| Denise Carvalho-Silva, Wellcome Trust Sanger Institute Manual Annotation By Havana: Towards A Reference Gene Set In Pig (Abstract 38) | |
| 11:45 - 13:00 | Lunch |
| Session 8: Summary and Next Steps | |
| 13:00 - 13:45 | Alan Archibald, leads open discussion on Sequence and Companion Manuscripts |
| 13:45 - 14:30 | Larry Schook, leads open discussion on Milestones and Timelines |
| 14:30 - 15:00 | Tea Break |
| Session 9: Community Annotation Session Chair: Alan Archibald and Jen Harrow | |
| 15:00 | Demonstration of manual annotation tools; discussion of community annotation, gene nomenclature; planning annotation jamboree |
| 18:00 | Bus departures |
| 18:00 - 20:00 | COST Action 861 Closed Meeting (COST Office, Rapporteur, COST Action Chair) |