Short Courses in Bioinformatics
At the Barts Cancer institute we are launching a range of short courses in bioinformatics run by our Cancer Bioinformatics group.
Course-1 |
Biological databases & Access to the annotated genomes, cancer online resources and microarray repositoriesNext course date: coming soon |
|
Course-2 |
Introduction to RNext course date: coming soon |
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Course-3 |
Microarray Data Analysis Using R and BioconductorNext course date: coming soon |
These short courses are aimed at students or bench scientists and there are courses available for those who are new to bioinformatics and require an introduction to more advanced courses for those who want to develop their skills further.
Please note we are limited to 20 places per course, so please register your interest if you wish to be informed about course dates.
Location:
The course will be held on the Charterhouse Square Campus. Please click here for location details
Course Information:
We are running three different courses relating to Bioinformatics. Please see below for further information and costs per course.
Course 1
Biological Databases & Access to the annotated genomes, cancer online resources and microarray repositories
The aim of this course is to familiarise molecular biologists with the available bioinformatics resources providing access to the sequenced annotated genomes, major cancer international projects as well as microarray data repositories.
Description
This is a one-day introductory course to using publicly available databases. It aims to provide molecular biologists with basic knowledge on what information can be found and where, as well as how can the information be accessed/retrieved. A variety of examples of use, which a user might require for a research or PhD project, will be presented.
Who is the course for?
This course is aimed for students or bench scientists who need to use available databases to answer biological questions. No prior knowledge of using the available computer resources is required.
Content
This short course will include lectures and practical sessions.
Lectures:
- General sequence databases
- Access to sequenced genomes:
- The National Center for Biotechnology Information (NCBI)
- The Ensembl project
- The University of California Santa Cruz (UCSC) Genome Browser
- Query Systems:
- BioMart and Entrez
- Specialised databases
- Human genes and genetic disorders catalog
- Online Mendelian Inheritance in Man (OMIM)
- Cancer resources and data portals
- The Cancer Genome Atlas (TCGA)
- International Cancer genome Consortium (ICGC)
- Microarray data repositories and mining systems
- Genome Expression Omnibus (GEO)
- ArrayExpress Archive and Atlas
Practical sessions:
- Using and querying databases for sequenced genomes data and performing in-depth data analysis for:
- Genes, transcripts and proteins from different transcriptome and proteome models:
- Ensembl, NCBI, UCSC
- Exonic, intronic and promoter regions
- Chromosomes and chromosomal regions
- Genes, transcripts and proteins from different transcriptome and proteome models:
- Using and querying cancer online resources:
- TCGA and ICGC
- Using and querying microarray data repositories:
- GEO and ArrayExpress Archive/Atlas
Requirements
A modern laptop with built-in wireless connectivity is required.
Course 2
Introduction to R (Coming soon)
R is a popular, freely available programming language and software environment for advanced statistical computing and data analysis.
Description
This is a one-day introductory course to using R. It teaches how to install and use, at a basic level, R for data analysis. It can be taken alone or in preparation for an advanced course on “Microarray Data Analysis Using R and Bioconductor”. A variety of examples of use will be presented.
Who is the course for?
This short course is aimed for students or bench scientists who are new and beginning users of R. No prior knowledge of statistics or programming is required to enrol. It covers the basics of R in preparation for a more in-depth course focusing on the analysis of microarray data.
Content
- Background and features
- Installation under various operating systems
- Commands, functions and data types
- Working environment
- Data manipulation
- Graphics and statistics
- Programming
- Bioconductor
Requirements
A modern laptop with built-in wireless connectivity, at least 2GB of RAM memory (4GB recommended) and adequate available disk space is required. Please make sure that you have required permission rights to install the R software during the course.
Course 3
Microarray Data Analysis Using R and Bioconductor (coming soon)
R is a popular, freely available programming language and software environment for advanced statistical computing and data analysis. Bioconductor provides free R packages for the analysis of high-throughput data.
Description
This is a two-day introductory course to using R and Bioconductor for the analysis of array data. It teaches how to install and use Bioconductor packages within R for data analysis including quality control, normalisation, filtering, statistical analysis, annotation and extraction of biological knowledge. This course will include a series of theoretical sessions followed by practical exercises.
*Participants are strongly advised to enrol for the “Introduction to R” course in preparation for this course.*
Who is the course for?
This course is aimed for biologists who are new to microarray data analysis and would like to work on research or PhD projects using gene expression data from Affymetrix GeneChip® IVT Arrays. No prior knowledge of statistics or programming is required to enrol.
*However, prior knowledge of R or attendance at the preceding “Introduction to R” course is necessary.*
Content
Each topic will have a practical session:
Day 1:
- First steps with R and Bioconductor
- Experimental design
- Quality assessment
- Normalisation procedures
- Data filtering methods
Day 2:
- Differential expression statistical analysis
- Hierarchical clustering techniques
- Annotations and extraction of biological knowledge
- Problems encountered when analysing data
- Help with your own research-related data analysis (optional)
Requirements
A modern laptop with built-in wireless connectivity, at least 2GB of RAM memory (4GB recommended) and adequate available disk space is required. Please make sure that you have required permission rights to install the R software during the course.
Course Fees
Please find the course fees below.
| # | Ref. | Course | Days | Standard | Discounted* |
|---|---|---|---|---|---|
| 1 |
BCI.BIF1 | Biological databases & Access to the annotated genome, cancer online resources and microarray repositories | 1 |
£250 | £200 |
| 2 |
BCI.BIF2 | Introduction to R | 1 |
£250 | £200 |
| 3 | BCI.BIF3 | Microarray Data Analysis using R and Bioconductor | 2 | £500 | £450 |
| 2&3 | BCI.BIF23 | Discounted rate for 2 courses Introduction to R and Microarray Data Analysis Using R and Bioconductor |
3 | £650 | £550 |
*Registered research students and BCI staff are eligible for the discounted rate.
You can pay online here or use an internal QMUL budget code.
How to Apply
If you would like to attend one of our courses in Bioinformatics please pay online HERE and complete our online registration form below.
Terms and conditions:
Cancellation will incur a 20% administration fee. The remaining funds will be reimbursed by cheque/BACs, upon receipt of written cancellation.
We regret we are unable to reimburse any fees for cancellations within 2 weeks of the course start date.
We reserve the right to cancel any of our courses and will endeavour to provide as much notice as possible in the unlikelihood of this happening. All course fees will be returned if the course is cancelled.
We have a limited number of places on each course and we can only confirm a place if payment has been received. Payments will be refunded if payment is received after the course is full.
All attendees will be required to bring with them a laptop with a built in wireless connector.
