PigNet - COST Action 861: European Network for Pig Genomics

Pig Genome III Conference: Meeting Schedule

Monday, November 02, 2009

Session 1: Physical Mapping and Sequencing
Session Chairs: Joseph Jen and Deb Hamernik
09:30 - 09:45Allan Bradley, Director, WTSI
Welcome and Introductory Comments
09:45 - 10:00Lawrence Schook, U. of Illinois
Back to the Future: Creating a Path Forward for Harvesting the Pig Genome
10:00 - 10:30Richard Clark, WTSI
The Pig Genome Sequencing Project
10:30 - 11:00Denis Milan, INRA, Toulouse
An integrated physical map of the pig genome (see abstract 62)
11:00 - 11:15Tea Break
11:15 - 11:45Hirohide 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 - 12:15João 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 - 14:00Lunch and Poster Session 1
Session 2: Sequence Assembly and Annotation
Session Co-Chairs: Alan Archibald & Patrick Chardon
14:00 - 14:30Alan Archibald, U. of Edinburgh
Assembly and annotation of the pig genome
14:30 - 15:00Jan Gorodkin, U of Copenhagen
Noncoding (ncRNA) in mammalian genomes (see abstract 53)
15:00 - 15:30Alfonso Valencia, Spanish National Cancer Research Centre
Protein function annotation at the genome level
15:30 - 16:00Ning 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 - 16:30Tea Break
Session 3: Biodiversity and Evolution
Session Co-Chairs: Greger Larson and Martien Groenen
16:30 - 17:00Greger Larson, Durham University
Biodiversity of global suiformes
17:00 - 17:30Martien Groenen, Wageningen University
Porcine genome HapMap (see abstract 52)
17:30 - 18:00Ana 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 - 19:00MC Meeting

Tuesday, November 03, 2009

Session 4: Genome Regulation
Session Chairs: Merete Fredholm & Leif Andersson
08:30 - 09:00Leif Andersson, Uppsala University
The birth of a new transcription factor in placental mammals
09:00 - 09:30Soren Brunak, Technical University of Denmark
Systematic study of complex interactions in biological systems
09:30 - 10:15Agnieszka 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 - 10:45Tea Break
10:45 - 11:15M 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 - 11:45Juan 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 - 14:00Lunch and Posters
Session 5: Comparative Genomics
Session Co-Chairs: Denis Milan and Craig Beattie
14:00 - 14:30Chris Ponting, MRC Functional Genetics Unit, Oxford
14:30 - 15:00Harris Lewin, U. of Illinois
The Pig's Place on the Mammalian Comparative Map
15:00 - 15:30Craig 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 - 16:00Tea Break
Session 6: Industrial Applications
Session Co-Chairs: Elisabetta Giuffra and Peter Burfening
16:00 - 16:30Jan Merks, IPG
A genetics company perspective
16:30 - 17:30Mark Boggess, NPB
A pork industry perspective
17:30 - 18:00Max 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 - 18:15Ioanna Stavridou, COST
Overview of COST and FA Domain
18:15Reception and Banquet

Wednesday, November 04, 2009

Session 7: Biological and Biomedical Insights
Session Chairs: Randy Prather and Larry Schook
08:30 - 09:00Randy Prather, U. of Missouri
Building blocks for creating models: Sequence, Transgenesis and Cloning
09:00 - 09:30Michel Georges, University of Liege
Searching for genetic determinants underlying variation in global and local recombination rate in cattle
09:30 - 10:15Yasu 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 - 10:45Tea Break
10:45 - 11:15Merete 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 - 11:45Bernhard 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 - 13:00Lunch
Session 8: Summary and Next Steps
13:00 - 13:45Alan Archibald, leads open discussion on
Sequence and Companion Manuscripts
13:45 - 14:30Larry Schook, leads open discussion on
Milestones and Timelines
14:30 - 15:00Tea Break
Session 9: Community Annotation
Session Chair: Alan Archibald and Jen Harrow
15:00Demonstration of manual annotation tools; discussion of community annotation, gene nomenclature; planning annotation jamboree
18:00Bus departures
18:00 - 20:00COST Action 861 Closed Meeting (COST Office, Rapporteur, COST Action Chair)