Capture Hi-C: Practical approaches to mapping genome-wide regulatory interactions

Chromosome Conformation Capture techniques are a powerful set of tools designed to interrogate the numerous structure-function relationships of the genome. In particular, the development of Hi-C has provided invaluable insights into the chromosome structure. The addition of ‘capture’ steps, to enrich Hi-C libraries for biologically meaningful genomic contacts, readily provides further levels of information, including the identities of long-range regulatory contacts that regulate genes.

This one-day training event was targeted at researchers aiming to set up genomic interaction methodologies in their research. The event covered both the experimental design and execution of high-quality library production and downstream bioinformatics processing and analyses. The course began with an overview of the field, plus the advantages and drawbacks of methods at our disposal. We provided advice on experimental setup, a working protocol, plus practical tips and suggestions to generate high quality NGS libraries. In the second part, attendees obtained demonstration and hands-on experience, using different bioinformatics tools to process and filter datasets, and extract meaningful interactions information.

Please note this training event did not include wet laboratory hands-on sessions.

Scientific Programme 

10:00 – 11:00 Registration

11:00 – 11:30 Welcome and Introduction

11:30 – 12:15
Hi-C library enrichment
Cameron Osborne (KCL)
12:15 – 13:00
Capture Hi-C method
Cameron Osborne (KCL)
13:00 Lunch

13:45 – 14:15
Introduction on data processing and analysis
Bori Mifsud (QMUL)
14:15 – 14:45
Data exploration (hands on)
Bori Mifsud (QMUL); Arsham Ghahramani (KCL); Aylin Cakiroglu (The Francis Crick Institute)
14:45 – 15:15
Data processing (hands on)
Bori Mifsud (QMUL); Arsham Ghahramani (KCL); Aylin Cakiroglu (The Francis Crick Institute)
15:15 – 15:45 Refreshment Break

15:45 – 16:30
Interaction calling and visualisation
Bori Mifsud (QMUL); Arsham Ghahramani (KCL); Aylin Cakiroglu (The Francis Crick Institute)
16:30 – 17:30 Questions, Discussions, Elevator pitches

17:30 Concluding remarks and meeting close

Date

Dec 13 2017

Time

10:00 am - 5:30 pm
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