Past workshops and summer schools

2013

Complex Disease Genetics for Clinicians 24-25 January 2013

Following a successful launch in 2012, this exciting new workshop will once again provide clinicians with an introduction to the field of complex disease genetics and its progress in recent years, including the success of genome-wide association studies, new biological insights and the transformative potential of next-generation sequencing technology. The course will combine lecture material from experts at the Wellcome Trust Genome Campus, computer-based practical sessions, and invited speakers from off-campus.

Scientific organisers
Jeff Barrett Group Leader, Wellcome Trust Sanger Institute, Hinxton, UK
Charlie Lees Consultant Gastroenterologist, Edinburgh, UK

2012

Working with the Human Genome Sequence 14-16 May 2012

This workshop provides an intensive introduction to bioinformatics tools freely available on the internet, focusing primarily on the Human Genome data. Students will be given hands-on training in the use of public databases and web-based sequence analysis tools. The workshops are aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. Acceptance will be subject to selection process. The workshops run over three days and are without exception residential on the Wellcome Trust Genome Campus.

Topics
Sequence formats and retrieval
Genome browsing
'De novo' analysis of sequence
Exploring function and disease
Sequence variation
Comparative sequence analysis

Working with Parasite Database Resources 21-26 October 2012

This residential workshop aims to provide experimental biologists with hands-on experience in genomic-scale data analysis, including genome browsers and comparison tools, methods for data integration, and resources for sophisticated data mining. Examples and exercises will be drawn primarily from Plasmodium and kinetoplastida parasites but are likely also to include other organisms contained in EuPathDB.org and / or GeneDB.org, thus applicants working on any protozoan parasite from these resources will benefit.

Taught as a collaboration between the Parasite Genomics Group (Wellcome Trust Sanger Institute, UK) and the Eukaryotic Pathogen Bioinformatics Resource Center (University of Georgia & University of Pennsylvania, US), the programme will include lectures on genomics and bioinformatics techniques, interspersed with hands-on exercises.

Proteomics Bioinformatics 5-9 November 2012

This joint EBI-Wellcome Trust workshop provides hands-on training in the basics of mass spectrometry and proteomics bioinformatics, search engines, quantitative approaches including SRM/MRM, MS data repositories, the use of public databases for protein analysis, annotation of subsequent protein lists and incorporation of information from molecular interaction and pathway databases. The workshop is aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. The practical elements of the course will take raw data from a proteomics experiment and analyse it. Participants will be able to go from MS spectra, identify peptides and finally to lists of protein identifiers that can be analysed further using a wide range of resources. The final aim is to provide attendees with the practical bioinformatics knowledge they need to go back to the lab and process their own data (including large datasets) when collected.

Working with Pathogen Genomes 9-14 December 2012

This five-day workshop aims to give molecular microbiologists a working knowledge of genomic analysis, which will cover the handling and processing of DNA sequence and transcriptomic data produced by ‘second generation’ sequencers. The course will be taught by members of the Sanger Institute Pathogen Genomics team and will take the form of a series of modules covering most aspects of sequence analysis and exploitation. Modules will be introduced with a short talk, followed by 'hands on' worked examples using bacterial and small eukaryotic pathogens.
The course begins with training in the use of genome analysis software (Artemis and ACT) developed at the Wellcome Trust Sanger Institute for genome exploration and comparative genomics. It then goes onto cover the mapping of Illumina sequence data and calling and recording SNPs and other sequence variation data. The course also features a module that aims to teach the basics of using genome/gene sequences to plot phylogenetic relationships between microbes, as well as an introduction to basic scripting for processing and mining data.

2011

Working with the Human Genome Sequence 9-11 May 2011

This workshop provides an intensive introduction to bioinformatics tools freely available on the internet, focusing primarily on the Human Genome data. Students will be given hands-on training in the use of public databases and web-based sequence analysis tools. The workshops are aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields.

Topics
Sequence formats and retrieval
Genome browsing
'De novo' analysis of sequence
Exploring function and disease
Sequence variation
Comparative sequence analysis

Proteomics Bioinformatics 15-19 July 2011

This joint EBI-Wellcome Trust workshop provides hands-on training in the basics of mass spectrometry and proteomics bioinformatics, search engines, quantitative approaches including SRM/MRM, MS data repositories, the use of public databases for protein analysis, annotation of subsequent protein lists and incorporation of information from molecular interaction and pathway databases. The workshop is aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. The practical elements of the course will take raw data from a proteomics experiment and analyse it. Participants will be able to go from MS spectra, identify peptides and finally to lists of protein identifiers that can be analysed further using a wide range of resources. The final aim is to provide attendees with the practical bioinformatics knowledge they need to go back to the lab and process their own data (including large datasets) when collected.

Working with Parasite Database Resources 3-7 October 2011

This residential workshop aims to provide experimental biologists with hands-on experience in genomic-scale data analysis, including genome browsers and comparison tools, methods for data integration, and resources for sophisticated data mining. Examples and exercises will be drawn primarily from Plasmodium and kinetoplastida parasites but are likely also to include other organisms contained in EuPathDB.org and / or GeneDB.org, thus applicants working on any protozoan parasite from these resources will benefit.

Working with Pathogen Genomes 20-25 November 2011

This five-day workshop aims to give molecular microbiologists a working knowledge of genomic analysis, which will cover the handling and processing of DNA sequence and transcriptomic data produced by ‘second generation’ sequencers. The workshop will be taught by members of the Wellcome Trust Sanger Institute Pathogen Genomics team and will take the form of a series of modules covering most aspects of sequence analysis and exploitation. Modules will be introduced with a short talk, followed by 'hands on' worked examples using bacterial and small eukaryotic pathogens.

The workshop begins with training in the use of genome analysis software (Artemis and ACT) developed at the Wellcome Trust Sanger Institute for genome exploration and comparative genomics. It then goes onto cover the mapping of Illumina sequence data and calling and recording SNPs and other sequence variation data. The course also features a module that aims to teach the basics of using genome/gene sequences to plot phylogenetic relationships between microbes, as well as an introduction to Perl programming for basic processing and mining of data.

2010

Working with the Human Genome Sequence 9-12 May 2010

The Workshops provide an intensive introduction to bioinformatics tools freely available on the internet, focusing primarily on the Human Genome data. Students will be given hands-on training in the use of public databases and web-based sequence analysis tools. The workshops are aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields.

Topics
Sequence Formats and Retrieval
Exploring function and disease
Genome Browsing
Sequence variation
De novo analysis of sequence
Comparative sequence analysis

Working with Parasite Database Resources 22-26 October 2010

This residential workshop aims to provide experimental biologists with hands-on experience in genomic-scale data analysis, including genome browsers and comparison tools, methods for data integration, and resources for sophisticated data mining. Many examples and exercises will be drawn from the kinetoplastida, including Leishmania spp., Trypanosoma brucei, and Trypanosoma cruzi, although applicants working on other protozoan parasites will also benefit.

Taught as a collaboration between the Pathogen Genomics Group (Wellcome Trust Sanger Institute, UK), the Eukaryotic Pathogen Bioinformatics Resource Center (University of Georgia & University of Pennsylvania, US), and the Seattle Biomedical Research Institute (US), the programme will include lectures on genomics and bioinformatics techniques, interspersed with hands-on exercises.

Proteomics Bioinformatics 13-17 December 2010

This joint EBI-Wellcome Trust workshop provides hands-on training in the use of public databases for peptide analysis, annotation of subsequent protein lists using these resources, incorporation of information from molecular interaction and pathway databases, and the use of protein 3D-structure data in proteomics experiments. The workshop is aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. The practical elements of the course will take raw data from a proteomics experiment and analyse it in order to go from MS spectra, identify peptides and finally to lists of protein identifiers that can be analysed further using a wide range of resources. The aim is to provide attendees with the practical bioinformatics knowledge they need to go back to the lab and process their own data (including large datasets) when collected.