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about

i'm currently a phd candidate in biochemistry specializing in bioinformatics in london, canada. i mainly work with state of the art long-read dna sequencing technologies, developing computational tools to solve biological problems

current projects

Western News - Algae tasked with producing COVID-19 test kitsResearchers at Western and Suncor are teaming up to use algae as a way to produce serological test kits for COVID-19 – a new process that overcomes shortfalls of existing processes while saving money.

education

phd (biochemistry) - in progress, western university, canada

msc (biochemistry), western university, canada

bsc (biomedical science), university of ottawa, canada

open source software

gerenuq - quickly filter long read alignments by query coverage. useful to remove mis-mapped reads in small eukaryotic genome and metagenome assembly polishing pipelines.

omicplotR - an R shiny package to visualize datasets as compositions. useful to explore sequencing count data using compositionally valid statistical methods.

q2-aldex2 - implemented ALDEx2 R package in qiime2 environment.

selection from cv

publications

*complete and validated genomes from a metagenome (pre-print)

plasmid-based complementation of large deletion in Phaeodactylum tricornutum biosynthetic genes generated by Cas9 editing

*omicplotR: visualizing omic datasets as compositions

targeted sequencing reveals expanded genetic diversty of human transfer RNAs

*first author

awards

lab2market/ mitacs accelerate ($15 000) - cloud platform for in-house plasmid validation

mitacs accelerate ($20 000) - rapid scaling of viral spike protein production for SARS-CoV-2 testing using Phaeodactylum tricornutum

ontario graduate scholarship ($15 000) - awarded three times

leadership

co-chair, biochemistry graduate student association (2020-2021)

co-chair, society of graduate students finance committee (2018-2020)

talks

3rd year synthetic biology guest lecture - modern dna sequencing and applications in synthetic biology

maud menton memorial lecture, invited speaker - in-house plasmid sequencing for rapid synthetic biology

fall graduate symposium, department of biochemistry - telomere-to-telomere assembly of Phaeodactylum tricornutum

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