Methods for chromatin interaction analysis
4th – 8th April 2011
Genome, Biopolis, Singapore
Welcome address by Workshop Leader
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Welcome to the Genome Institute of Singapore. The ChIA-PET workshop will be held from 4th to 8th April 2011. While many parts of the world are still very cold, Singapore welcomes you with its warm weather and sunny skies. On this trip, you will need to prepare some tropical wear such as t-shirts, bermuda shorts and sandals. What you will also need to prepare for is five full days of intensive work, in both wet lab and dry lab. You are encouraged to bring with you your ChIP samples for trial as well as your lap tops for data analysis.
Dr Yijun RUAN |
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Introduction to the technology and the workshop Genomes are organized into high-order architectures for functions. However little is known at molecular levels how chromosomes are organized and what types of structural platforms are implemented for genome functions. The ChIA-PET method is developed to address these questions. In this approach, long-range chromatin interactions are captured by formaldehyde cross-linking and the fragmented DNA-protein complexes are enriched by chromatin immunoprecipitation (ChIP). Tethered DNA fragments in each of the chromatin complexes are joined to each other via DNA linkers through proximity ligation. Paired-End diTags are extracted from the ligation products, and are analyzed by massive parallel high-throughput sequencing. The ChIA-PET tag reads are then mapped to reference genome sequences to reveal contacting information between remote DNA elements presumably brought together in close spatial proximity by target protein factors. Since the publication of the ChIA-PET method (Fullwood et al. 2009), we have received overwhelming requests from various scientific organisations to learn the method. In order to respond to this huge volume of requests, we have decided to organize a hands-on workshop. This workshop will be a five-day intensive training course. During these five days, we will cover the most critical experimental aspects in ChIP sample preparation and ChIA-PET library construction. We will also touch base on the unique features of sequencing the ChIA-PET libraries, and introduce the basic concepts for computational analysis of ChIA-PET data. For the training to be most effective, our plan is to host a small class of about 20 - 25 participants, from 4th to 8th April 2011, in Singapore. |
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Organizers
Committee Dr RUAN Yijun Ms Winnie Serah LIM Trainers Secretariat Ms Prudence YEO Ms CHAN Siok Bin |
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About the Organizing Institutes |
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