• Research group

Swarbreck Group

Understanding the complexity of eukaryotic transcriptomes and gene regulation.

Group Leader
David Swarbreck

Group activities.

The Swarbreck Group (Core Bioinformatics) provides high-quality computational analyses of a range of sequence data types and develops software and analysis pipelines that support the Institute’s Core Strategic Programmes and National Capability in Genomics and Single Cell Analysis (NCGS).

The group are involved in the analysis of sequence data from a wide variety of sequencing platforms and work alongside other Earlham Institute research groups to establish new software tools and analysis methods.

We have a specific research interest in the development of sequencing, assembly, and annotation strategies to characterise transcriptome complexity and the application of RNA sequencing coupled with complementary data (Chip-seq, BS-seq, ribosomal profiling) to explore the complexity of eukaryotic transcriptional landscapes.

Tools.

RAMPART
A workflow management system for de novo genome assembly.

Mikado
A method to leverage multiple transcriptome assembly methods for improved gene structure annotation.

PAREnet
For degradome assisted discovery and visualization of small RNA/target interaction networks.

Portcullis
A tool for junction analysis and spliced read alignment filtering.

Related reading.