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THIS ONE DAY COURSE is designed for scientists and clinicians with little or no experience in next generation sequencing. The course is run by leading experts and aims to provide the experimental and bioinformatics skills to measure and analysis the expression of mRNA and long non-coding RNA using next generation sequencing. We assume that sequencing will be performed by an external provider and will provide advice in this area. The course is computer based and will involve a combination of presentations/exercises to analysis ‘actual’ next generation sequencing data using publicly (free) available programmes.
Measurement and analysis of mRNAs and long non-coding RNAs using next generation sequencing (RNA-seq)
- Overview on mRNAs and long non-coding RNAs
- Introduction to RNA databases (Ensembl, RefSeq, GenBank and human lincRNA catalogue)
- RNA isolation techniques and quality assessment
- Overview of next generation sequencing platforms
- Introduction to data file formats (FASTA, FASTQ, SAM, BAM, GTF and BED files)
- Mapping of RNA data onto a reference genome using Tophat
- Quantification of known RNA species using CuffDiff
- Identification and quantification of novel long non-coding RNAs using CuffLinks
- Visualisation and analysis of sequencing data using the IGV genome browsers
- Functional annotation using DAVID pathway analysis
Course Trainers: Dr Nick Ilott (University of Oxford) and Professor Mark Lindsay (University of Bath)
Dates and location:
- Thursday 5th June 2014 – StayAhead IT Training Rooms, nr Barbican Tube, London
Friday 6th June 2014 – StayAhead IT Training Rooms, nr Barbican Tube, London (FULL)
Wednesday 2nd July – Nowgen, University of Manchester, Manchester
Thursday 10th July – IT Training Rooms, University of Bath, Bath
Cost: £299 (2 courses – £550; 3 course – £800)
For reservations contact m.a.lindsay@bath.ac.uk
Further information and payment at rnaseq.php
