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GSLS Bioinformatics Training 2011-12

Programme of events provided by Graduate School of Life Sciences
(Wed 14 Sep 2011 - Thu 20 Dec 2012)

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Wed 14 Sep 2011 – Mon 5 Mar 2012

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September 2011

Wed 14
Bioinformatics: Microarray Analysis with Bioconductor (1 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

This course introduces researchers to a multidisciplinary approach to microarray data analysis. Particular attention is devoted to the design of microarray experiments, data normalization and quality control as well as to statistical analysis.

The course covers not only two-colour platforms but also the popular Illumina and Affymetrix single-channel technologies.

All aspects of the course are aimed at non-statisticians, suitable for beginners in microarrays as well as those who have already been working in genomics. The course may also be useful to computational biologists new to microarray analysis.

Thu 15
Bioinformatics: Microarray Analysis with Bioconductor (2 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

This course introduces researchers to a multidisciplinary approach to microarray data analysis. Particular attention is devoted to the design of microarray experiments, data normalization and quality control as well as to statistical analysis.

The course covers not only two-colour platforms but also the popular Illumina and Affymetrix single-channel technologies.

All aspects of the course are aimed at non-statisticians, suitable for beginners in microarrays as well as those who have already been working in genomics. The course may also be useful to computational biologists new to microarray analysis.

Fri 16
Bioinformatics: Microarray Analysis with Bioconductor (3 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

This course introduces researchers to a multidisciplinary approach to microarray data analysis. Particular attention is devoted to the design of microarray experiments, data normalization and quality control as well as to statistical analysis.

The course covers not only two-colour platforms but also the popular Illumina and Affymetrix single-channel technologies.

All aspects of the course are aimed at non-statisticians, suitable for beginners in microarrays as well as those who have already been working in genomics. The course may also be useful to computational biologists new to microarray analysis.

Mon 19
Bioinformatics: Introduction to PERL (1 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

Tue 20
Bioinformatics: Introduction to PERL (2 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

Wed 21
Bioinformatics: Introduction to PERL (3 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

Thu 22
Bioinformatics: Introduction to R (1 of 2) Finished 09:30 - 17:30 Department of Genetics, Room G12

An introduction to using R statistical software packages. Emphasis will be on R basics, from learning about the environment and in-built functions, to the use of R packages for tackling everyday analysis problems. A variety of examples with a biological theme will be presented. No prior R knowledge or programming skills will be assumed, although a familiarity with Unix style command line would be an advantage but not essential.

Fri 23
Bioinformatics: Introduction to R (2 of 2) Finished 09:30 - 17:30 Department of Genetics, Room G12

An introduction to using R statistical software packages. Emphasis will be on R basics, from learning about the environment and in-built functions, to the use of R packages for tackling everyday analysis problems. A variety of examples with a biological theme will be presented. No prior R knowledge or programming skills will be assumed, although a familiarity with Unix style command line would be an advantage but not essential.

Mon 26
Bioinformatics: Using the Ensembl Genome Browser (1 of 2) Finished 09:30 - 17:00 Department of Genetics, Room G12

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This two day workshop offers participants the possibility of gaining lots of hands-on experience in the use of the Ensembl genome browser but also provides them with the necessary background information. The workshop is primarily targeted at wetlab researchers.

Participants are encouraged to bring problems/questions about their research to try to tackle these during the workshop using Ensembl.

Tue 27
Bioinformatics: Using the Ensembl Genome Browser (2 of 2) Finished 09:30 - 15:00 Department of Genetics, Room G12

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This two day workshop offers participants the possibility of gaining lots of hands-on experience in the use of the Ensembl genome browser but also provides them with the necessary background information. The workshop is primarily targeted at wetlab researchers.

Participants are encouraged to bring problems/questions about their research to try to tackle these during the workshop using Ensembl.

November 2011

Mon 14
Bioinformatics: Advanced R Programming Finished 09:30 - 17:30 Department of Genetics, Room G12

The course will teach intermediate to advanced R programming using the object-oriented programming paradigm, and how to document code and data to lead to a fully functional R package.

Wed 30
Bioinformatics: Ensembl Developers Workshop (1 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This 3-day workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers the core, compara, variation and functional genomics (regulation) databases and APIs. For each of these the database schema and the API design as well as its most important objects and their methods will be presented. This will be followed by practical sessions in which the participants can put the learned into practice by writing their own Perl scripts.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

December 2011

Thu 1
Bioinformatics: Ensembl Developers Workshop (2 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This 3-day workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers the core, compara, variation and functional genomics (regulation) databases and APIs. For each of these the database schema and the API design as well as its most important objects and their methods will be presented. This will be followed by practical sessions in which the participants can put the learned into practice by writing their own Perl scripts.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Fri 2
Bioinformatics: Ensembl Developers Workshop (3 of 3) Finished 09:30 - 17:30 Department of Genetics, Room G12

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This 3-day workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers the core, compara, variation and functional genomics (regulation) databases and APIs. For each of these the database schema and the API design as well as its most important objects and their methods will be presented. This will be followed by practical sessions in which the participants can put the learned into practice by writing their own Perl scripts.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Mon 5
Bioinformatics: Introduction to R (1 of 2) Finished 09:30 - 17:30 Department of Genetics, Room G12

An introduction to using R statistical software packages. Emphasis will be on R basics, from learning about the environment and in-built functions, to the use of R packages for tackling everyday analysis problems. A variety of examples with a biological theme will be presented. No prior R knowledge or programming skills will be assumed, although a familiarity with Unix style command line would be an advantage but not essential.

Tue 6
Bioinformatics: Introduction to R (2 of 2) Finished 09:30 - 17:30 Department of Genetics, Room G12

An introduction to using R statistical software packages. Emphasis will be on R basics, from learning about the environment and in-built functions, to the use of R packages for tackling everyday analysis problems. A variety of examples with a biological theme will be presented. No prior R knowledge or programming skills will be assumed, although a familiarity with Unix style command line would be an advantage but not essential.

Wed 7
Bioinformatics: Introduction to PERL (1 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

Thu 8
Bioinformatics: Introduction to PERL (2 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

Fri 9
Bioinformatics: Introduction to PERL (3 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course takes students from having no knowledge of how to program, to being able to write useful applications. Students will come away with an application framework that they can easily adapt and extend to suit their own particular needs. Each course topic is introduced and placed in context, and then complete example code is provided to illustrate the subject under discussion, which is gone through line by line and then implemented by the students. For more advanced students related challenges are provided without solutions, although training staff are happy to provide help and guidance. Throughout the course, the emphasis is on making sure that each student understands and appreciates what is going on, and therefore the course handbook provides plenty of room for the students’ own notes, while the provision of comprehensive answers to class questions is a top priority.

February 2012

Mon 6
Bioinformatics: Introduction to PERL new (1 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course provides a gentle and practical introduction to the writing of PERL programs for the complete novice. Participants are led through a series of example programs. Upon completion of the course, attentive participants will be able to write simple PERL programs from scratch and to customize more complex code to fit their needs. Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Tue 7
Bioinformatics: Introduction to PERL new (2 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course provides a gentle and practical introduction to the writing of PERL programs for the complete novice. Participants are led through a series of example programs. Upon completion of the course, attentive participants will be able to write simple PERL programs from scratch and to customize more complex code to fit their needs. Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Wed 8
Bioinformatics: Introduction to PERL new (3 of 3) Finished 09:45 - 16:30 Department of Genetics, Room G12

This course provides a gentle and practical introduction to the writing of PERL programs for the complete novice. Participants are led through a series of example programs. Upon completion of the course, attentive participants will be able to write simple PERL programs from scratch and to customize more complex code to fit their needs. Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Mon 20
Bioinformatics: Advanced R Programming Finished 09:30 - 17:30 Department of Genetics, Room G12

The course will present intermediate to advanced R programming using the object-oriented programming paradigm. It will cover how to document code and data to produce a fully functional R package. Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.

Wed 22
Bioinformatics: Transcriptomics Tools from the EBI new Finished 09:30 - 13:30 Department of Genetics, Room G12

This course provides an introduction to the tools to access and analyze transcriptomics data available from the Europian Bioinformatics Institute (EBI). Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email

March 2012

Mon 5
Bioinformatics: Introduction to R (1 of 2) Finished 09:30 - 17:30 Department of Genetics, Room G12

This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. Further information is available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by email.