Dr SOPHIE SHAW

Dr SOPHIE SHAW

Bioinformatician

Overview
Dr SOPHIE SHAW
Dr SOPHIE SHAW

Contact Details

Telephone
work +44 (0)1224 273471
Email
Address
The University of Aberdeen Centre for Genome Enabled Biology and Medicine
23. St Machar Drive
Old Aberdeen

Centre for Genome Enabled Biology and Medicine Web Page

Biography

Dr Shaw joined the CGEBM as a bioinformatician in May 2015 from the University of Exeter where she completed her PhD in Biological Sciences investigating the phenotypic impact of allele specific expression. Following her PhD, Dr Shaw undertook a post-doctoral position researching transcriptional responses during environmental inter-species interactions. She brings a background in ecological and environmental genomics (eDNA), with core expertise in RNA-seq and functional annotation, and whole genome sequencing and assembly, along with skills in fungal and plant molecular biology.

Her work for the CGEBM has covered a wide range of bioinformatics applications with analysis of data from both prokaryotic and eukaryotic species. Applications have included whole genome, single cell genome and  transcriptome assemblies, microbial community analysis using 16S rRNA sequencing and viral like particle sequencing, differential gene expression analysis, and ChIP sequencing analysis.

Dr Shaw has experience in the delivery of bioinformatics training modules in varied genomics analyses, including UNIX, short read genomics, assembly methods, transcriptomics, and shotgun whole genome and amplicon based metagenomics. Dr Shaw brings these skills to the training portfolio currently being delivered to the University of Aberdeen research community by CGEBM.

Teaching

Teaching Responsibilities

Dr. Shaw currently contributes to the teaching of the following modules:

MB5021: Bioinformatics

MB5522: Advanced Bioinformatics and Genome Sequencing

ME40LB: Intercalated Medical Degree

MT5515: Basic Research Methods.

In addition, Dr. Shaw has supervised MSc students with bioinformatics-based final year research projects.

Further Info

External Responsibilities

Dr. Shaw regularly contributes to the delivery of workshops covering the topics of genomics and bioinformatics internationally including:

ISCD Summer School 2017, Introduction to Sequence Analysis and Algorithms, Roscoff, France, 2017

ASM Microbe 2017, Beginning Bioinformatics: An Introduction to the Command Line Workshop, New Orleans, USA, 2017

Workshop on Genomics, Cesky Krumlov, Czech Republic, 2014-2017

Workshop on Microbial Genomics, Harvard University, USA, 2016

NERC Workshop on Metagenomics and Population Genomics, Totnes, UK, 2014

Publications

Publications 

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