Contact: joedgallagher[at]gmail.com

Location: Liverpool, UK

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Education

Doctor of Philosophy, University of Sheffield, UK
      Thesis title: “Gregarious immunisation in the mealworm beetle, Tenebrio molitor

MBiolSci Zoology, University of Sheffield, UK

Projects

Ubitrail: An open-source behavioural analysis tool for tracking two-dimensional locomotion in insects

Rubitrail: An R package for quantifying locomotion from Ubitrail tracking software

See github repos for more.

Published research papers

Armitage S.A.O., Gallagher J.D., Thompson, J.J.W., Siva-Jothy M.T., Evison, S.E.F. (2016). Resource constraints and variation in cuticular colour and architecture in adult Tenebrio molitor. Journal of Insect Physiology. doi:10.1016/j.jinsphys.2016.11.005 (Paper link)

Jacobs C.G.C., Gallagher J.D., Evison S.E.F., Heckel, D.G., Vilcinskas, A., Vogel H. (2016). Endogenous egg immune defenses in the yellow mealworm beetle (Tenebrio molitor). Developmental & Comparative Immunology. doi:10.1016/j.dci.2016.12.007 (Paper link)

Skills

Technical skills

  • R programming: statistical analysis (regression, general linear models, mixed modeling, principal component analysis, etc…), machine learning (classification, resampling, random forest), trajectory analysis, graphical visualisation (ggplot2), package development and documentation (using knitr)
  • Microsoft Excel: pivot tables, VLOOKUP, macros
  • Computer vision: automated analysis of microscopy images used in invertebrate immunology assays (C++); developed motion tracking software (C++) to quantify insect locomotion and behaviour
  • Web development: HTML5, CSS3, some JavaScript, PHP
  • Relational databases: design and queries (MySQL, SQLite); basic administration (phpmyadmin)
  • Web scraping and data / text mining (JSON/XML)
  • Bash scripting on Linux OS
  • Use of scientific databases (e.g. Web of Science for citation indexing)

Communication, teaching, and teamwork skills

  • Published in peer-reviewed scientific journals (available on request)
  • Reviewed for peer-reviewed scientific journals
  • Oral and poster presentations at scientific conferences
  • Teaching assistant on numerous undergraduate laboratory practicals (2011 – 2015)
  • Provided technical training on laboratory techniques and data analysis to visiting students and members of staff
  • Co-supervised several undergraduate and Masters research projects
  • Active contributor to outreach programme ‘Discovery’ at University of Sheffield, a series of interactive workshops and talks aimed at promoting STEM to schoolchildren (2012-2016)