LUMC

ESF Next Generation Sequencing Meeting

Leiden, The Netherlands, August 29 - September 1, 2010

Note: Registration is closed.


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General Program:

DATE8:30-9:009:00-12:3012:30-13:3013:30-17:0017:00-19:0019:00
08/29/10Registration from 12:00RegistrationHands-on workshops  
08/30/10coffeeRegistration and Oral session 1LunchOral session 2Posters & Drinks 
08/31/10coffeeOral session 3LunchOral session 4Posters & DrinksDinner
09/01/10coffeeOral session 5LunchNew Technology Sponsored Talks  


Program color code: Keynote speakers Selected researchers Selected young researchers


Day 1 (Aug 29, 2010)

Hands-on workshops: EBI Resources & Training Team and LUMC bioinformaticians - more information

13:30-17:00 Four concurrent sessions

Topics:



Day 2 (Aug 30, 2010)

8:00-11:00 Registration
8:30-9:00 Welcome coffee

Oral Session 1a: From old to new: evolution and archaeology

Chair: Peter de Knijff
9:00-9:30 Evolutionary insights from the 1000 Genomes Project: Chris Tyler-Smith, The Wellcome Trust Sanger Institute, Hinxton, UK
9:30-9:50 Ancient DNA research without PCR: the power of single molecule sequencing: Eveline Altena, Leiden University Medical Center, Leiden, NL
9:50-10:20 Hunting the Molecular Past: Eske Willerslev, Ancient DNA and Evolution Group, Department of Biology, Univ of Copenhagen, Denmark

10:30-11:00 coffee

Oral Session 1b: Gene expression and regulation, part I

Chair: GertJan van Ommen
11:00-11:30 Evolution of transcriptional control in mammals: Mike Wilson, Cancer Research UK, Cambridge Research Institute Department of Oncology, University of Cambridge, UK
11:30-11:50 Nucleolar association of DNA: Marek Gierlinski, University of Dundee, Dundee, UK
11:50-12:10 Pol II ChIP-seq as a measure of gene transcription rate: Michal Mokry, Hubrecht Institute, Utrecht, NL
12:10-12:30 Linking genomic variation to differences in transcriptomes: Marieke Simonis, Hubrecht Institute, Utrecht, NL

12:30-13:30 Lunch

Oral Session 2: Gene expression and regulation, part II

Chair: Edwin Cuppen
13:30-14:00 Tag-based transcript sequencing: Comparison of SAGE and CAGE: Matthias Harbers, DNAFORM Inc., Japan
14:00-14:20 The small transcriptome of prostate cancer: Elena S. Martens-Uzunova, Erasmus MC, Rotterdam, NL
14:20-14:40 Next generation sequencing-based mRNA profiling of total blood in a large human cohort: Peter-Bram 't Hoen, Leiden University Medical Center, Leiden, NL
14:40-15:00 RNA-Seq in Ensembl: Simon White, Wellcome Trust Sanger Institute, Hinxton, UK
15:00-15:30 coffee
15:30-16:00 Mapping and quantifying mammalian transcriptomes by RNA-Seq: Barbara Wold, Division of Biology, California Institute of Technology, USA
16:00-16:20 Tracing the derivation of embryonic stem cells from the inner cell mass by single cell RNA-Seq analysis: Raimo Tanzi, Life Technologies, USA
16:20-16:50 Next-generation systems genetics: Edwin Cuppen, Hubrecht Institute, Utrecht, NL

17:00-19:00 Poster viewing & Drinks



Day 3 (Aug 31, 2010)

8:30-9:00 Welcome coffee

Oral Session 3: Re-sequencing and diagnostics, part I

Chair: Xavier Estivill
9:00-9:30 Bacterial metagenomics: Sacha van Hijum, NIZO food research, Ede; Radboud University Medical Center, Nijmegen; and TIFN
9:30-9:50 Benefit of high throughput sequencing in virus discovery: Michel de Vries, Academic Medical Center of the University of Amsterdam, Amsterdam, NL
9:50-10:10 Multiplexed targeted genomic enrichment and next-generation sequencing for efficient mutation discovery: I.J Nijman, Hubrecht Institute, Utrecht, NL
10:10-10:30 Multiplexed amplicon sequencing of the breast cancer genes BRCA1 & 2: opportunities, challenges and limitations: Kim de Leeneer, CMGG, University Hospital Ghent, Gent, BE
10:30-11:00 coffee
11:00-11:30 The next generation of human genetics: Debbie Nickerson, Dept. of Genome Sciences, Univ of Washington, Seattle
11:30-11:50 Disease gene identification by exome sequencing: Alexander Hoischen, Radboud University Nijmegen Medical Centre, Nijmegen, NL
11:50-12:20 The 'next' of next-generation sequencing; diagnostic applications: Joris Veltman, Radboud University Nijmegen Medical Centre, Nijmegen, NL

12:30-13:30 Lunch

Oral Session 4: Current and Future Challenges

Chair: Ivo Gut
13:30-14:00 Alignment and assembly: Ewan Birney, EBI, Hinxton, UK
14:00-14:20 Reconstructing complex plant genomes using NGS data: Erwin Datema, Wageningen University, Wageningen, NL
14:20-14:40 Context dependency in Illumina sequencing: Irina Abnizova, Wellcome Trust Sanger Institute, Hinxton, UK
14:40-15:00 Direct comparison of highly multiplexed pre-barcoded microarray and solution- based genomic enrichment of human samples: Magdalena Harakalova, University Medical Center Utrecht, Utrecht, NL
15:00-15:30 coffee
15:30-16:00 Storage and archiving: Guy Cochrane, EBI, Hinxton, UK
16:00-16:20 The vision of the Genomic Standards Consortium in today's ultra high-throughput sequencing era: Peter Sterk, Wellcome Trust Sanger Institute, Hinxton, UK
16:20-16:50 READNA - 4 Generations of Nucleic Acid Analysis: Ivo Gut, Centre Nacional d'Analisis Genomics (CNAG), Barcelona, Spain

17:00-19:00 Poster viewing & Drinks

19:00 Dinner: Restaurant Building 2



Day 4 (Sept 1, 2010)

8:30-9:00 Welcome coffee

Oral Session 5: Re-sequencing and diagnostics, part II

Chair: Joris Veltman
9:00-9:30 Fast forward: genomic technologies and research ethics: Jeantine Lunshof, Faculty of Health, Medicine and Life Sciences, Maastricht University, NL
9:30-9:50 Exome sequencing identifies WDR35, encoding an IFT-A protein, as a novel gene involved in Sensenbrenner syndrome: Christian Gilissen, Radboud University Nijmegen Medical Centre, Nijmegen, NL
9:50-10:10 Exome sequencing combined with linkage-based gene prioritization strategy for identification of autosomal dominant mutations in multiplex autism families: Martin Poot, University Medical Center Utrecht, Utrecht, NL
10:10-10:30 Mate-pair sequencing reveals de novo and inherited chromosomal rearrangements in a family trio: Wigard Kloosterman, University Medical Center Utrecht, Utrecht, NL
10:30-11:00 coffee
11:00-11:30 Getting more comprehensive understanding of human genetic variation: Ruiqiang Li, Beijing Genomics Institute, Shenzhen, China
11:30-11:50 Finding the causal variant in a region of genetic association: Allan F McRae, Queensland Institute of Medical Research, Brisbane, AU
11:50-12:20 Using next-generation sequencing to understand human genome structural variation: Evan Eichler, Univ of Washington, Seattle, USA

12:30-13:30 Lunch

New Technology Sponsored Scientific Talks

Chair: Johan den Dunnen
13:30-13:55 Rapid preparation of targeted resequencing libraries from genomic and FFPE-extracted DNA using microfluidic PCR: Fiona Kaper, R&D team, Fluidigm
13:55-14:20 Single molecule real-time nucleic acid sequencing-by-synthesis using Quantum-dot (Qdot(R)) nanocrystal DNA polymerases with FRET-based detection: Manfred Lee, Genetic Systems, Life Technologies, Carlsbad CA, USA

Closing discussion

14:20-14:30 Results of survey among European NGS users: Terry Vrijenhoek, Radboud University Nijmegen Medical Centre, Nijmegen, NL
14:30-15:15 Round table discussion on NGS in Europe - ERA-Instuments
15:15-15:30 Closing and Awards: Johan den Dunnen

15:30-16:00 coffee
16:00 All ends