Joseph Ward Email & Phone Number

Dundee, Gb

Dundee, Gb

Responsible for managing, improving and maintaining the Privacy Hub AWS environment for data scientists. Involved in SOC2 and ISO27001 compliance and audits, and security monitoring. Responsible for enabling systems to allow data scientists access to the resources they need while keeping the infrastructure and client's data secure.

United Kingdom

Responsible for running, improving and maintaining the AWS environment for data scientists. Involved in SOC2 and ISO27001 compliance and audits, and security monitoring. Heavily involved in automating systems to allow data scientists access to the resources they need while keeping the infrastructure and client's data secure.

Dundee, United Kingdom

Involved in the running of the Trusted Research Environment providing researchers access to health data in a secure manner.

St Andrews, Fife

Primarily involved in analysing data for projects submitted to the St Andrews BioinformaticsUnit, often designing bespoke pipelines for the analysis (Python, R). The work has spanned alarge range of topics including analysis of bacterial-infection isolates from hospitals to trackinfection out-breaks and the analysis of large RNA-seq data sets from non-standard organisms(Chicken, bacteria). Part of my time was spent providing bioinformatics support for colleaguesas well as teaching bioinformatics-focused courses to wider audiences. I am also currentlythe system administrator for the 192-core multi-user bioinformatics cluster.

Dundee, United Kingdom

{Principally responsible for the creation and maintenance of the primary-analysis sequencing pipeline for the Genomic Sequencing Unit. During the last 3 years I have set up, from scratch, a pipeline for the first stage of analysis for DNA sequencing data. I have also created a platform for the quality-control of the sequencing data produced for each of the sequencing runs; simplifying and streamlining the process of accessing the data produced. I was also responsible for providing feedback on any errors and potential improvements to the laboratory, as well as making the data available to customers. This required working with large amounts of data and collecting all available meta-data to help improve the quality of data given to customers.

The majority of my Ph.D. work was focused around epigenetic analysis using ChIP-Seq data. Using a simple enrichment metric based on the number of reads that occur over a gene that I developed it is possible to predict RNA polymerase II binding using transcription factor and histone modification data. Using a simple linear model on 8 markers (5 transcription factors, 3 histone modifications) it is possible to account for 78% of the variance in RNA polymerase II binding using just histone modifications. A larger analysis using 47 ChIP-Seq datasets for human embryonic stem cells (23 transcription factors, 24 histone modifications) using LASSO regression, was able to account for 80% of the variance in RNA polymerase II binding. A subsection of my Ph.D. was focussed on generating a method to predict hot-spot; residues, the residues which contribute the largest energy to a binding in protein-protein interfaces.

Doctor Of Philosophy (Phd), Bioinformatics

Master Of Research, Mres, Bioinformatics, Pass With Distinction - Top Of Class

My dissertation was on the use of consensus scoring in predicting protein-protein interactions.

Bachelor Of Science (Bsc), Biochemistry, 2:2