David Lougheed GitHub
From May 2019 until August 2020, I worked as a software developer at the Canadian Centre for Computational Genomics (C3G) in Montréal.
I have a B.Sc. in Computer Science and Biology from McGill (graduated May 2019 with First Class Honours.)
Epigenetic variation impacts ancestry-associated differences in the transcriptional
response to influenza infection (2022 preprint)
Katherine A Aracena, Yen-Lung Lin, Kaixuan Luo, Alain Pacis, Saideep Gona, Zepeng Mu, Vania Yotova, Renata Sindeaux, Albena Pramatarova, Marie-Michelle Simon, Xun Chen, Cristian Groza, David Lougheed, Romain Gregoire, David Brownlee, Yang Li, Xin He, David Bujold, Tomi Pastinen, Guillaume Bourque, Luis B Barreiro. bioRxiv Preprint. DOI: 10.1101/2022.05.10.491413
baRcodeR: An open‐source R package for sample labelling (2020)
Yihan Wu, David R. Lougheed, Stephen C. Lougheed, Kristy Moniz, Virginia K. Walker, Robert I. Colautti. Methods in Ecology and Evolution. DOI: 10.1111/2041-210X.13405
Genome-wide microhomologies enable precise template-free editing of biologically
relevant deletion mutations (2019)
Janin Grajcarek, Jean Monlong, Yoko Nishinaka-Arai, Michiko Nakamura, Miki Nagai, Shiori Matsuo, David Lougheed, Hidetoshi Sakurai, Megumu K. Saito, Guillaume Bourque & Knut Woltjen. Nature Communications. DOI: 10.1038/s41467-019-12829-8
Software & Projects
STRkit (work in progress)
An STR genotyper for long read sequencing data. This is an ongoing project created as part of my Master's degree in Human Genetics at McGill.
EpiVar Browser (2022)
A browser for exploring quantitative trait loci and their associations with genotype and ancestry. Part of an upcoming publication by Aracena et al. (currently in preprint; 2022)
A platform for storing, analyzing, and visualizing genomic and epigenomic data, created while working at C3G.
A utility for creating online databases for scientific data.
MHCut Browser (2019)
A browser for microhomologies at variant CRISPR/Cas9 cut sites. Part of a publication by Grajcarek et al. (2019)
McGill Network (2018)
A visualization tool and API for examining shared interests between McGill researchers.
Elbow Lake Trail Guide (2015, revised 2016)
An interactive trail guide app available on Android and iOS.