A diverse professional background bridging biomedicine, scientific computing, business and engineering. Driven by curiosity and creative challenges, I have developed a wide range of skills from internal business process management, econometrics and data consultancy, to applying novel high-throughput genomic analysis and machine learning techniques. Looking forward I hope to explore opportunities in the bridge between science, technology and business.
Providing a range services from bioinformatics analysis through to the construction of automated data workflows. Technologies used include Nextflow, Apache Airflow, Python, Flask and containerised infrastructure.
UKRI programme impact assessment: Tracking the qualitative and quantitative benefits from a ongoing £45M+ UKRI investment in bioinformatics services including technical infrastructure and building construction. Econometric assessment of open data services and their impact at home and abroad. Reporting to the programme board through verbal presentations and a self-developed impact tracking website hosting interactive data visualisations, monthly presentations and qualitative reports.
Internal operational analysis: Analysis of internal administrative data including operational costs, service usage analysis, promotion and salary fairness. Providing economic analysis in support of the institute’s directors in order to secure further funding for open science.
Internal BA project: An internal business analysis project introducing a software platform that couples product development to quality assurance and documentation teams. Extracting requirements from a diverse range of stakeholders within a high-growth company through to an fully integrated QA platform with associated process improvements. Meeting quality standards such as ISO 9001 etc. - Internal operational analysis: Analysis of internal administrative data including operational costs, service usage analysis, promotion and salary fairness. Providing economic analysis in support of the institute’s directors in order to secure further funding for open science.
Data management consultancy: Requirement elicitation and implementation of complex custom scientific data management software and database configurations. Internal review of product functionality. Quality assurance software testing. Direct customer support and sales engagement.
Other internal project initiatives: Pioneered the development of the product documentation leading a small team of colleagues to create new content and establish best practice for maintaining these documents alongside the software development lifecycle.
Profiling chromatin during mitosis in neural and glioma stem cells: Bioinformatic analysis in collaboration with the Pollard lab, comparing ATAC-seq accessibility between mitosis and interphase to reveal bookmarking loci and candidate transcription factors crucial for cellular lineage specification and oncogenesis.
Epigenetic analysis of naive pluripotency regulators: In collaboration with the Hendrich lab, application of novel analysis to ATAC-seq, MNase-seq and ChIP-seq data to elucidate the function and mechanisms behind the NuRD reprogramming complex active in embryonic stem cells.
Cancer subtype analysis: Clinically relevant de novo subtypes were derived using a novel co-expression sub-clustering method in glioma, breast carcinoma and kidney carcinoma alongside consensus expression modules that are found in a majority of tumour types. Project continued as “CoexpressionExplorer” a web-based open source visualisation and analysis tool.
Glioma stem cell analysis: Integrative classification of cell lines into novel and established clinical subtypes matching features derived from bulk tumour tissues. Further functional characterisation revealing developmental roles for key gene networks.
4C-seq analysis: Rif1 and replication timing project: Bioinformatic analysis, consultation and bioinformatics tutoring.
Two summer internships: 2009 and 2010
Electrical and combat engineering alongside deployments to Afghanistan and the Falkland Islands. Leadership experience.
Customer data management and integration consultancy focused on demonstration and integration of software solution value. Internal operational process and data analysis. Econometric assessment of the wider value of scientific data services.
I come from a strong background in molecular biology with first hand experience in a range of laboratory methods, model systems and disease knowledge. Much of my academic research has been focused on the characterisation of tumour tissues and tumour derived cell lines with the intention of extracting clinically pertinent features such as companion diagnostics, drug repurposing and disease specific targets.
A flexible nature to adopt the analytical tools appropriate for the task at hand. Proficiency in various data tools including Python, SQL, Linux/Bash, R, HTML/Javascript, D3.js and an increasing personal interest on computational infrastructure (Docker, networking, Sysadmin etc.). High performance computing environment experience (LSF, database management, Nextflow etc.) and general bioinformatics tools.
Customer workshops demonstrating representative workflows and new product features. Experience leading a RNA-seq analysis component of two EMBL PhD student courses alongside an EMBL high-throughput sequencing workshop. Regular mentoring of lab students and visitors covering next-generation sequencing based methods.
Domestic electrical requirements, combat engineering, and a hobbyist level enthusiasm for integrative electronics systems.