Education

Ph.D. - University of Toronto Mississauga - 2017-present
Computational & Evolutionary Genomics - Dept. of Cell and Systems Biology
Supervisor: Prof. Rob Ness

B.Sc. (Hons.) - University of Toronto - 2012-2016
Majors in Human Biology, Cell & Systems Biology
Thesis: Study of the endophytic bacterial and fungal communities inhabiting coconut palms infected by lethal yellowing-like phytoplasmas in Côte d’Ivoire.
Supervisors: Prof. Keiko Yoshioka & Dr. Yaima Arocha Rosete

Publications

Hasan AR, Ness RW. (2018) The genomic landscape of recombination rate variation in Chlamydomonas reinhardtii reveals effects of linked selection. bioRxiv. doi:10.1101/340992. Available online.

Morales-Lizcano NP, Hasan A, To H, Lekadou TT, Copeland J, Wang PW, Diallo HA, Konan Konan JL, Yoshioka K, Moeder W, Scott J, Arocha Rosete Y. (2017) Microbial diversity in leaves, trunk and rhizosphere of coconut palms (Cocos nucifera L.) associated with the coconut lethal yellowing phytoplasma in Grand-Lahou, Côte d’Ivoire. African Journal of Biotechnology. 16(27), 1534-1550. doi:10.5897/AJB2017.16006. Available online.

Arocha Rosete Y, Morales-Lizcano NP, Hasan A, Yoshioka K, Moeder W, Michelutti R, Satta E, Bertaccini A, Scott J. (2016) First report of the identification of a ‘Candidatus Phytoplasma pruni’-related strain in Trillium species in Canada. New Disease Reports, 34, 19. doi:10.5197/j.2044-0588.2016.034.019. Available online.

Oral Presentations

  • Hasan A, Ness RW. Genomic correlates of recombination rate variation in Chlamydomonas reinhardtii. CSB Research Day, Dept of Cell and Systems Biology @ University of Toronto, Toronto, ON; 2018. Awarded Best Oral Presentation.
  • Hasan A, Ness RW. Recombination rate variation in Chlamydomonas reinhardtii. Graduate Research Colloquium @ University of Toronto Mississauga, Mississauga, ON; 2018
  • Hasan A, Ness RW. The landscape of recombination rate variation in Chlamydomonas reinhardtii. Dept of Cell and Systems Biology Seminar Series @ University of Toronto, Toronto, ON; 2017
  • Hasan A, Ness RW. Recombination rate variation and leaky organelle inheritance in Chlamydomonas reinhardtii. Midwest PopGen 2017 @ Michigan State University, East Lansing, MI; 2017
  • Chan SSW, Hasan A. Research: more than just a plan B. Operation Med School Toronto/STEM Fellowship; 2017
  • Noukhovitch A, Hasan A. A new generation of data-native learners. Civic Tech Toronto; 2016. (Video)

Poster Presentations

  • Hasan AR, Ness RW. Recombination rate variation and linked selection in the Chlamydomonas reinhardtii genome. Joint Congress on Evolutionary Biology II @ Le Corum, Montpellier, France; 2018.

Teaching

  • Instructor/Contributor, Programming workshops + code-alongs, University of Toronto Coders; 2017-present.
    • Taught and designed various coding sessions (R, Python)
  • Course Coordinator/Instructor, Quantitative Methods in R for Biology (EEB313), Department of Ecology and Evolutionary Biology, University of Toronto; 2018
    • Responsible for course organization, course administration, and teaching four introductory R lectures
    • Topics taught - introductory R, dplyr, tidyr, ggplot2
  • Instructor, Data Carpentry workshops (Python), University of Toronto. Event Website; 2018
    • Topics - data analysis and visualization with matplotlib and seaborn
  • Co-instructor, Introduction to R and Graphics for Biology, International Exchange Program in Developmental and Perinatal Biology, University of Toronto Dept. of Physiology + Karolinska Institute; 2018
    • Topics - Introduction to R, plotting, compiling R markdown files, dplyr
  • Instructor, Data Carpentry workshops (Genomics), Centre for Addiction and Mental Health (CAMH) Toronto. Event Website; 2018
    • Taught the Data Wrangling in Genomics session in a two-day workshop for researchers both at CAMH and around the GTA.
    • Topics - quality control of sequencing reads, FastQC, read trimming with trimmomatic, alignment with bwa, variant calling
  • Instructor, Software Carpentry workshops (R), University of Toronto. Event website; 2018
    • Taught the second R session in a two-day workshop for researchers and students at the University of Toronto.
    • Topics - loops, vectorization, dplyr, ggplot2
  • Teaching Assistant, Genomics (BIO458H5S), Department of Biology, University of Toronto Mississauga; 2018
    • Assisted graduate and undergraduate learners in navigating a Linux/Python environment for genomics analyses
    • Software taught: samtools, sickle, GATK, tophat, cufflinks, SPAdes
  • Teaching Assistant, Bioinformatics (BIO362H5F), Department of Biology, University of Toronto Mississauga; 2017
    • Assisted undergraduate students in learning Python for bioinformatics; designed a lab introducing the pandas package.
    • Other packages taught: Bio.SeqIO, Bio.Phylo, re, pysam, numpy.
  • Course Developer, Genomics (BIO458H5S), Department of Biology, University of Toronto Mississauga; 2017
    • Designed course labs in JupyterHub environment alongside course instructor; topics included reference-based assembly, variant calling, transcriptomics, and de novo assembly
  • Helper, Software Carpentry workshops (Python). Event website; 2017

Awards

  • Conference Travel Grant, School of Graduate Studies, University of Toronto; 2018
    • Value: $840. For attendance to the Joint Congress on Evolutionary Biology II, Montpellier, France
  • Conference Travel Grant, Department of Biology, University of Toronto Mississauga; 2018
    • Value: $900. For attendance to the Jount Congress on Evolutionary Biology II, Montpellier, France
  • Best Oral Presentation, CSB Research Day 2018, Department of Cell and Systems Biology, University of Toronto; 2018
    • Value: $120.
  • Elizabeth Ann Wintercorbyn Award, Department of Cell and Systems Biology, University of Toronto; 2017
    • Value: $500. Research excellence award for a student in the department engaged in work with potential benefits for agriculture
  • Conference Travel Grant, Department of Biology, University of Toronto Mississauga; 2017
    • Value: $250. For attendance to the Midwest Population Genetics 2017 conference, Michigan State University, East Lansing, MI

Miscellaneous

Programming languages/environments

  • R (incl. tidyverse packages)
  • Python
  • Bash/Unix shell
  • Jupyter (Notebook/Lab/Hub/nbgrader)
  • Markdown
  • LaTeX
  • Git
  • JavaScript (familiarity)
  • ReactJS (familiarity)

Genomics software

  • GATK
  • plink
  • bwa
  • samtools
  • vcftools
  • LDhelmet
  • tophat
  • cufflinks
  • FastQC
  • Trimmomatic
  • SPAdes

Some more details regarding projects I’ve worked on are available on the About page.