Non-coding RNAs: From discovery to function

Non-coding RNAs have shot to prominence as key regulatory molecules involved in development, differentiation, and metabolism of most eukaryotic organisms. Investigating non-coding RNA function is important for our understanding of these biological processes and also for a range of disease states. In addition, it is now obvious that changes in expression profiles of non-coding RNAs can serve as clinically relevant biomarkers and aid in the early detection of disease. The course, Non-coding RNAs: From discovery to function, is designed to introduce researchers to the theoretical and practical aspects of the methods used for discovery and profiling of non-coding RNA expression such as in-situ hybridization, microarray and qPCR analyses, fluorescent sorting and massively parallel sequencing.

Aims and Topics

The course will be focused on the theoretical and practical aspects of methods used for discovery and profiling of non-coding RNAs including in-situ hybridization, qPCR analyses, fluorescent sorting and massively parallel sequencing. This will be accomplished through practical exercises using real experimental samples from ongoing research projects. This will be followed by training in approaches to assess microRNA function. Training will also include data analysis, miRNA target prediction, correlation of mRNA and miRNA expression profiles as well as correlation of data obtained by various methods.

During the course we will pay particular attention to following aspects:

Good scientific and laboratory practice in experimental design, preparation of samples and their quality assessment as well as critical evaluation of data;
Introduction and explanation of different approaches and instrumentation systems used for studying noncoding RNAs;
Detailed troubleshooting;
Comparison of analysis strategies and evaluation of obtained data;
Importance of standardized approach to miRNA expression profiling and suitable normalization strategies.
+ show speakers and program
Day 1 - Saturday 7 June
Time Topic
12:30 Lunch
13:30
Welcome and Introduction
ncRNAs and methods used for their profiling
QC of RNA Quality
Introduction to Sequencing
Biologists and Bioinformatics
18:00-19:00 Dinner
19:00-21:00 Wine & Cheese get together


Day 2 - Sunday 8 June
Time Topic
09:00 Blackboard Session: Preparation of sequencing libraries
Wet lab: library preparation
12:00 Lunch
13:00 library preparation continued
18:00 Dinner
19:00-21:00 Summary of the day, participants’ presentations


Day 3 - Monday 9 June
Time Topic
09:00 Wet lab: library preparation continued
11:30 Talk: miRNAs, mRNAs (the good, the bad and the rest)
12:30 Lunch
13:30 Talk: LNA™ based technologies for identification and quantification of microRNA
biomarkers in development and disease
Blackboard session: miQPCR
Wet lab: miQPCR
18:00 Dinner
19:00-21:00 Summary of the day, participants’ presentations


Day 4 - Tuesday 10 June
Time Topic
09:00 Talk: New MicroRNAs for breast cancer diagnosis (R. Dwyer)
miQPCR data evaluation
Bioinformatics started
12:30 Lunch
13:30 Talk: MicroRNA and mesenchymal stem cell differentiation (L. Howard)
Bioinformatics continued
18:00 Dinner
Summary of the day, participants’ presentations


Day 5 - Wednesday 11 June
Time Topic
09:00 Blackboard session: In Situ Hybridization
Wet lab: In situ hybridization
12:00 Talk: MicroRNAs and carcinogenesis (L. Berkley-Elliman)
12:30 Lunch
13:30 Wet lab: In situ hybridization continued
18:00 Summary of the day
18:30 Free evening


Day 6 - Thursday 12 June
Time Topic
09:00 Talk: Establishment and maintenance of transposon silencing in the male germ line
Bioinformatics
Bioinformatics
12:30 Lunch
13:30 Talk: The long non-coding RNA landscape of cancer
Bioinformatics
17:30 Summary of the day, participants' presentations
19:00 BBQ at College Bar


Day 7 - Friday 13 June
Time Topic
09:00 Ancient miRNAs and evolution of tissue identity
Data analysis and their interpretation
12:30 Lunch
14:00 More data analysis, troubleshooting
Bioinformatics
17:00 Concluding remarks

Speakers and Trainers

Marie-Laure Baudet, University of Trento, Italy
Bianka Baying, EMBL Heidelberg, Germany
Vladimir Benes, EMBL Heidelberg, Germany
Laura Berkley-Elliman, NCBES, NUI Galway, Ireland
Jonathon Blake, EMBL Heidelberg, Germany
Claudia Carrieri, EMBL Monterotondo, Italy
Mirco Castoldi, University Clinics, Düsseldorf, Germany
Foteini Christodoulou, Biomedical Research Foundation Academy of Athens, Greece
Paul Collier, EMBL Heidelberg, Germany
Roisin Dwyer, Breast Cancer Research Institute, NUI Galway, Ireland
Anton Enright, EMBL-EBI, United Kingdom
Bettina Haase, EMBL Heidelberg, Germany
Linda Howard, Regenerative Medicine Institute, NUI Galway, Ireland
Eric Miska, Wellcome Trust Sanger Institute and Gurdon Institute at the University of Cambridge, United Kingdom
Dónal O'Carroll, EMBL Monterotondo, Italy
Emerald Perlas, EMBL Monterotondo, Italy
Leonora Quintais, EMBL-EBI, United Kingdom
John Rinn, Broad Institute of MIT and Harvard University, USA

7 Jul - 13 Jul 2014
Galway
Ireland
meeting website