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The course will cover, at a basic level, building phylogenetic trees based on molecular sequence data. This will include the general context and uses of tree-building, choosing models of DNA and protein evolution, tree-building methods including distance, parsimony, maximum likelihood and Bayesian MCMC, and confidence in results. Examples will be worked through using MEGA. Further information can be found here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
”To consult the statistician after an experiment is finished is often merely to ask him to conduct a post mortem examination. He can perhaps say what the experiment died of.” - R.A. Fisher
Modern genomics technologies are able to deliver an unprecedented amount of data rapidly. However, without due care and attention early in the experimental process, such data are meaningless if they cannot adequately answer the intended research question. This course is aimed at those planning high-throughput genomics experiments and highlights the kinds of questions they should be asking themselves. We we also review key statistical concepts that underpin the design process and are referred to throughout further Bioinformatics training courses.
Timetable
- 12:30 - 13:30 - Introductory Statistics (Lecture) - Mark Dunning
- 13:30 - 14:15 - Exploratory data analysis (Discussion) - Mark Dunning
- 14:30 - 15:30 - Experimental Design (Lecture) - Roslin Russell
- 15:30 - 17:00 - Experimental Design (Discussion) Roslin Russell, Mark Dunning
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
This session provides an introduction to Mass spectrometry Proteomics at the European Bioinformatics Institute (EBI). Further information for this session is available.
This session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
This course covers state-of-the-art tools and methods for system biology using biological data of different types. The participants will learn about the basis of modelling large-scale datasets as logic networks, as well as a more detailed approach using deterministic and stochastic modelling. At the end of the course the basis of three dimensional modelling of protein-protein interaction will be covered.
The course timetable can be found here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here.
This session provides an introduction to the tools to access and analyze Metabolomics data available from the European Bioinformatics Institute (EBI). Further information for this session is available here.
The session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Tue 30 Oct 2012 | 13:00 | Finished |
Fri 1 Feb 2013 | 13:00 | Finished |
Wed 6 Nov 2013 | 13:00 | Finished |
This course introduces researchers to a multidisciplinary approach to microarray data analysis. Attention is devoted to the design of microarray experiments, data normalization and quality control as well as to statistical analysis. Further information is available here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Wed 14 Sep 2011 | 09:30 | Finished |
Mon 23 Apr 2012 | 09:00 | Finished |
Mon 24 Sep 2012 | 09:00 | Finished |
Wed 22 May 2013 | 09:00 | Finished |
Wed 28 Aug 2013 | 09:00 | Finished |
This session provides an introduction to the IntAct and Reactome database systems. Also to the analysis tools for molecular interaction data available from the European Bioinformatics Institute (EBI). Further information for this session is available here.
This session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Wed 31 Oct 2012 | 13:00 | Finished |
Mon 28 Jan 2013 | 09:30 | Finished |
The course will provide training for bench-based biologists to use molecular data to construct and interpret phylogenies, and test their hypotheses. Delegates will gain hands-on practice of using a variety of programs freely available online and commonly used in molecular studies, interspersed with some lectures.
Course timetable is available here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Mon 16 Dec 2013 | 09:00 | Finished |
This course provides an introduction to the construction of high quality Multiple Sequence Alignments (MSAs) and the computation of phylogenetic trees from those alignments. Further information is available here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Mon 17 Dec 2012 | 09:30 | Finished |
- Nowomics - Access to the latest data and papers relevant to your research
- Nowomics is a new website to help biologists stay up to date with the latest data and papers relevant to their research. Try it here.
- Nowomics tracks new papers and many types of data in online repositories. You ‘follow’ the genes and processes you work on to see a Twitter-like news feed of new papers, annotation, interactions, curated comments and more.
- For each gene you can also include information from orthologues and related genes directly in your news feed.
- Data are currently included for human, mouse, rat, fly and plant.
- This short workshop will show you how to use the Beta version of Nowomics to find the latest information for genes & keywords, how to set up your personalised news feed and configure email alerts. We’ll also demonstrate new portals to help researchers working on Drosophila or Arabidopsis find the latest and most popular papers.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Mon 31 Mar 2014 | 10:30 | Finished |
In this session we will introduce the major protein databases available from the EBI. The use of the UniProtKB database will be especially considered. Further information for this session is available here.
This session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Fri 26 Oct 2012 | 13:00 | Finished |
Fri 25 Jan 2013 | 13:00 | Finished |
Mon 21 Oct 2013 | 13:30 | Finished |
This practical-based course will deal with all aspects of the prediction of protein structure, concentrating on the prediction of secondary structure, fold recognition and comparative modelling of structures. Computational aspects of protein structure determination, validation and analysis will be covered. The course will be a mixture of talks and guided practicals. Further information is available here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Thu 21 Mar 2013 | 09:30 | Finished |
This three day course will cover a workflow to conduct molecular epidemiological analysis of viruses, using R both as a platform for analysis and graphics, as well as to call external tools. The first day will cover viral sequence databases, data extraction and manipulation, and sequence alignment; the second will cover phylogenetic reconstruction; and the third will cover analysis of the resulting phylogenies.. Further information for this session is available.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
An introduction to the chemical biology resources available from the EBI. The workshop will cover ontology and bio-activity data, structure representation and tools for protein-ligand investigation. Further information is available here.
This session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here.
Date | Availability | |
---|---|---|
Wed 30 Oct 2013 | 13:30 | Finished |
This session provides an introduction to the tools to access and analyze Transcriptomics data available from the European Bioinformatics Institute (EBI). Further information for this session is available here.
This session is one of a series of short introductions to EBI Services, run together, but bookable separately (see Related Courses section below).
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Wed 22 Feb 2012 | 09:30 | Finished |
Thu 25 Oct 2012 | 13:00 | Finished |
Thu 24 Jan 2013 | 13:00 | Finished |
Thu 28 Nov 2013 | 09:00 | Finished |
The Ensembl project provides a comprehensive and integrated source of annotation of, mainly vertebrate, genome sequences. This one-day workshop offers a comprehensive practical introduction to the use of the Ensembl genome browser as well as essential background information.
This event will be primarily be conducted by video from a parallel event in the Craik-Marshal Building, Cambridge.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here.
Date | Availability | |
---|---|---|
Mon 26 Sep 2011 | 09:30 | Finished |
Mon 19 Mar 2012 | 09:30 | Finished |
Thu 21 Jun 2012 | 09:30 | Finished |
Tue 27 Nov 2012 | 09:30 | Finished |
Tue 2 Apr 2013 | 09:30 | Finished |
Fri 21 Jun 2013 | 09:30 | Finished |
Fri 29 Nov 2013 | 09:30 | Finished |
Wed 26 Mar 2014 | 09:30 | Finished |
Wed 18 Jun 2014 | 09:30 | Finished |
Fri 28 Nov 2014 | 09:30 | Finished |
The Ensembl Plants project offers a single and integrative collection of interfaces for accessing and comparing genome-scale data for 38 species (release 24, November 2014). Our Genome Browser allows visualization and analysis of plant genomic sequences including gene annotation, genetic variation and comparative genomics. Tools for downstream genomic analyses such as VEP (Variant Effect Predictor) and BioMart (data export) will be also covered in this workshop. In addition to our Browser and web tools, the publicly available data in Ensembl Plants can be accessed programmatically via our Perl and REST APIs, downloaded FTP or accessed through MySQL queries. Users can view their own data in the context of the reference sequence and datasets.
This course covers state-of-the-art tools and methods for NGS RNA-seq and exome variant data analysis, which are of major relevance in today's genomic and gene expression studies. Further information is available here.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
Date | Availability | |
---|---|---|
Mon 30 Sep 2013 | 09:30 | Finished |
Mon 3 Mar 2014 | 09:30 | Finished |
Mon 9 Jun 2014 | 09:30 | Finished |