Sebastiano Montante
B.Sc., University of Catania, Italy, 2015
M.Sc., University of Pavia, Italy , 2017
“Machine learning algorithms in flow cytometry data analysis”
Ph.D. Supervisor: Dr. Ryan Brinkman, Medical Genetics, UBC
April 9, 2024
Yerin Kim
B.Sc. University of British Columbia, 2021
“Long-read Based Native RNA Sequencing of Human Transcriptomes Reveals Complexity of mRNA Modification and Crosstalk between RNA Regulatory Features”
M.Sc. Supervisor: Drs. Steven Jones, Medical Genetics and Ly Vu, Pharmaceutical Sciences, UBC
April 5, 2024
Patricia Ye
B.Sc. University of British Columbia, 2021
“Learning cellular hierarchies through structured topic modelling ”
M.Sc. Supervisor: Drs. Yongjin Park, Statistics, UBC and Ramon Klein Geltink, Pathology and Laboratory Medicine, UBC
April 4, 2024
Hossein Ebrahimikondori
B.Sc. Sharif University of Technology, Iran, 2021
“Structure-aware deep learning model for peptide toxicity prediction ”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics, UBC and Genome Sciences Centre, BCCA
April 4, 2024
Luka Culibrk
B.Sc., University of British Columbia , 2017
“Methods and analysis of somatic copy number variation in advanced human cancers”
Ph.D. Supervisor: Dr. Steven Jones, Medical Genetics, UBC and Genome Sciences Centre , BCCA
March 28, 2024
Chenkai Li
B.Sc., Shanghai University of Finance and Economics, China, 2015
M.Sc., University College London, UK 2017
“Machine learning for antimicrobial peptide discovery and design”
Ph.D. Supervisor: Dr. Inanc Birol, Medical Genetics, UBC and Genome Sciences Centre , BCAA
January 31, 2024
Jeremy Fan
B.Sc. University of Calgary , 2020
“Structural variant calling and resolution from long reads sequencing data ”
M.Sc. Supervisor: Dr. Steven Jones, Medical Genetics, UBC and Genome Sciences Centre, BCCA
January 22, 2024
Marco Tello Palencia
B.Sc. Universidad Nacional Autonoma de Mexico , 2019
“Application of supervised learning models to compare epigenetic predictors of gene expression across healthy breast cell types”
M.Sc. Supervisor: Dr. Keegan Korthauer , Statistics, UBC
December 21, 2023
Olivia Garland
B.Sc. University of British Columbia , 2021
“Development and Application of Machine Learning-Based Tools for the Discovery of Small Molecule Inhibitors of SARS-CoV-2 Papain-like Protease (PLpro)”
M.Sc. Supervisor: Dr. Artem Cherkasov, Urological Sciences, UBC
December 15, 2023
Helena de Castro Alvarenga
B.Sc. University of Brasilia , 2019
“Simulation-based inference of micelle geometry from 2D cryo-EM images of membrane proteins”
M.Sc. Supervisor: Dr. Khanh Dao Duc, Mathematics, UBC
December 13, 2023
Irem Yucel
B.Sc. Middle East Technical University, Turkey, 2020
“Improving white spruce genome annotation and generation of a chromosome-scale epigenetic map”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics and Genome Sciences Centre , UBC
December 8, 2023
Theodora Lo
B.Sc. University of British Columbia , 2020
“The Genome of Black Spruce: Annotation & Analyses”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics and Genome Sciences Centre , UBC
November 23, 2023
Armaghan Sarvar
B.Sc. Amirkabir University of Technology, Iran, 2021
“Genome misassembly detection using Stash: a data structure based on stochastic tile hashing”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics and Genome Sciences Centre , UBC
November 17, 2023
Lingyu Yang
B.Sc. University of British Columbia, 2021
“Streamlined high throughput assembly and standardization of reference-grade animal mitochondrial genomes”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics and Genome Sciences Centre , UBC
October 31, 2023
Ali Mirza
B.Sc., University of Michigan-Dearborn, 2011
M.Sc., University of Michigan- Ann Arbor, 2017
“The gut microbiome in pediatric onset of multiple sclerosis”
Ph.D. Supervisors: Drs. Helen Tremlett and William Hsiao, Experimental Medicine, UBC
October 26, 2023
Sebastian Hunter Moreno
B.Sc. Pontificia Universidad Catolica de Chile, 2019
“Microbiome associations with the gut-brain axis: gut-microbiota changes in major depressive disorder and infant neurodevelopment”
M.Sc. Supervisors: Dr(s). Brett Finlay and Sara Mostafavi, Microbiology & Immunology , UBC
October 19, 2023
Xiao Yu Zhang
B.Sc. (Pharmacy) University of British Columbia, 2013
“Identification of pharmacogenetic variants influencing the likelihood of developing treatment-induced mucositis in pediatric oncology patients using pathway analysis”
M.Sc. Supervisors: Dr(s). Wyeth Wasserman and Catrina Loucks, Medical Genetics , UBC
October 6, 2023
Post-graduation: Doctoral studies in Bioinformatics graduate program, UBC
Giuliano Netto Flores Cruz
B.Sc. Federal University Rio Grande do Sul, 2018
“Evaluating omics-based tests with Bayesian decision curve analysis”
M.Sc. Supervisor: Dr. Keegan Korthauer, Statistics , UBC
Aug 25, 2023
Post-graduation: Doctoral studies in Statistics, UBC
Bradley Jones
B.Sc., Simon Fraser University, 2012
M.Sc., Simon Fraser University, 2015
“Phylogenetic methods for estimating human immunodeficiency virus 1 proviral integration dates”
Ph.D. Supervisor: Dr. Jeffrey Joy, Centre for Excellence in HIV/AIDS, UBC
August 21, 2023
Post-graduation: Post-doctoral studies at Simon Fraser University.
William Casazza
B.Sc., Carnegie Mellon University, Pittsburgh, PA, 2017
“Finding the Functional Consequences of Genetic Risk Loci on Gene Expression and DNA Methylation by Integrating Contextual Information”
Ph.D. Supervisors: Drs. Jessica Dennis and Sara Mostafavi, Medical Genetics, UBC
August 3, 2023
Angus Campbell
B.Sc. Dalhousie University, 2015
“Investigations into Transcriptomic Engram Neurons”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry , UBC
Aug 3, 2023
Jorge Holguin Cruz
B.Sc. University of British Columbia, 2020
“Widespread alteration of protein autoinhibition in human cancers”
M.Sc. Supervisor: Dr. Joerg Gsponer, Biochemistry , UBC
Aug 1, 2023
Charlotte Barclay
B.Sc. University of SouthHampton, UK , 2013
“3D genomic insights of an early branching metazoan: a chromosome-scale assembly of mnemiopsis leidyi and differential expression in early development”
M.Sc. Supervisor: Dr. Steven Plotkin, Physics & Astronomy, UBC
July 18, 2023
Shanwei Tong
B.Sc. Tianjin University, China , 2019
“Whole genome sequencing of Camplobacter in a chicken abattoir to characterize the population dynamics”
M.Sc. Supervisor: Dr. William Hsiao, Pathology & Laboratory Medicine, UBC
May 11, 2023
Ivan Gill
B.Sc. University of British Columbia , 2019
“Interactive visualizations for two large public health datasets”
M.Sc. Supervisor: Dr. William Hsiao, Pathology & Laboratory Medicine, UBC
April 20, 2023
Pouya Ahmadvand
B.Sc. Shahid Rajaee Teacher Training University, 2017
“A deep learning approach for classification of pancreatic adenocarcinoma whole-slide pathology images”
M.Sc. Supervisor: Dr. Ali Bashashati, Biomedical Engineering, UBC
April 6, 2023
Matthew Nguyen
B.Sc. Simon Fraser University , 2020
“Genomic characterization and global contextualization of ESBL-producing E. coli from pediatric patients in Qatar”
M.Sc. Supervisor: Dr. William Hsiao, Pathology & Laboratory Medicine, UBC
April 3, 2023
Ka Ming Nip
B.Sc., Simon Fraser University, 2015
M.Sc., University of British Columbia,
“Transcriptome assembly and visualization for RNA-sequencing data”
Ph.D. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA & Medical Genetics, UBC
March 30, 2023
Talha Goktas
B.Sc. Bilkent University, 2020
“K-Mer-based data structures and pipelines for sequence mapping and analysis”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCAA
February 10, 2023
Lisa Wei
B.Sc. Simon Fraser University, 2016
“Characterizing gene expression patterns associated with hetergeneity and relapse in pediatric acute myeloid leukemia “
M.Sc. Supervisor: Marco Marra, Genome Sciences Centre, BCAA
January 30, 2023
Tunc Morova
B.Sc., Marmara University, Turkey, 2015
M.Sc., Koc University, Turkey, 2018
“Deciphering non-coding driver mutations in prostate cancer”
Ph.D. Supervisor(s): Dr. Faraz Hach and Dr. Wilfred Jeffries, Vancouver Prostate Centre and Microbiology & Immunology, UBC
December 7, 2022
Jose Dimayacyac
B.Sc. University of British Columbia, 2021
“Evaluating the adequacy of widely used phylogenetic models for gene expression evolution “
M.Sc. Supervisor: Matthew Pennell, Zoology, UBC
December 6, 2022
Reza Soltani
B.Sc. Sharif University of Technology, 2020
“A machine learning and algorithmic tool to advance Peyronie’s disease assessment “
M.Sc. Supervisor: Faraz Hach, Vancouver Prostate Centre
December 6, 2022
Hazem Mslati
B.Sc. University of British Columbia, 2020
“Computational strategies for the discovery of small molecule therapeutics against SARS-CoV2 virus “
M.Sc. Supervisor: Art Cherkasov, Urological Sciences, UBC
December 5, 2022
Kevin Yang
B.Sc. University of British Columbia, 2020
“LiquidBayes: a Bayesian network for monitoring cancer progression using liquid biopsies”
M.Sc. Supervisor(s): Andrew Roth and Yongjin Park , BC Cancer Research Centre, BC Cancer Agency
December 5, 2022
Armita Safa
B.Sc., University of Tehran, 2020
“Discovery of mid-range novel sequence insertions using long-read sequencing”
M.Sc. Supervisor: Faraz Hach, Vancouver Prostate Centre
December 5, 2022
Ryan Riley
B.Sc. University of British Columbia, 2017
“Peptide detectability algorithm and mass tag labeling, fractionation, and ion acquisition methods in mass spectrometry-based proteomics”
M.Sc. Supervisor(s): Gregg Morin and Ryan Morin, BC Cancer Research Centre, BC Cancer Agency
December 2, 2022
Tiffany Leung
B.Sc. University of British Columbia, 2019
“Identification of regulatory mechanisms in governing gene expression from the inactivated X chromosome”
M.Sc. Supervisor: Wyeth Wasserman, BC Children’s Hospital Research Institute and Medical Genetics, UBC
October 12, 2022
Anh-Tien Ton
B.Sc., McGill University, 2016
M.Sc., University of Montreal, 2018
“Development and application of consensus hit-calling protocols for the virtual screening of “undruggable” and difficult drug targets”
Ph.D. Supervisor: Dr. Artem Cherkasov, Vancouver Prostate Centre, Vancouver General Hospital, UBC
September 8, 2022
German Novakovskiy
B.Sc., Moscow State University, Russia, 2017
“Advancing our understanding of genome regulation via optimization of stem cell differentiatic and interpretable deep learning”
Ph.D. Supervisor: Dr. Wyeth Wasserman, BC Children’s Hospital Research Institute and Medical Genetics, UBC
August 22, 2022
Ghazal Ebrahimi
B.Sc. Sharif University of Technology, Iran, 2020
“Integrative analysis of short and long read single cell RNA-seq to understand transcriptomic landscape changes in non-obstructive Azoospermia”
M.Sc. Supervisor: Dr. Faraz Hach, Prostate Centre, Vancouver General Hospital.
August 19, 2022
Ogan Mancarci
B.Sc. Bilkent University, Turkey, 2013
“Identification cell type marker genes of the brain and their use in estimation of cell type proportions”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
June 27, 2022
Almas Khan
B.Sc. University of British Columbia, 2018
“Investigating and correcting for the technical, clinical and biological contributors to variation in placental methlation”
M.Sc. Supervisors: Drs. Elodie Portales-Casamar and Wendy Robinson
June 10, 2022
Janet Li
B.Sc. University of British Columbia, 2017
“Genomic and transcriptomic signatures of virulence and UV resistance in Beauveria bassiana“
M.Sc. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
May 31, 2022
Saelin Bjornson
B.Sc. University of British Columbia, 2019
“Elastic net regression for the selection of orthogroups predictive of trophic mechanisms in diverse eukaryotes”
M.Sc. Supervisor: Dr. Patrick Keeling, Botany, UBC
May 27, 2022
Rachel Miller
B.Sc. Queen’s University, 2017
“Phylodynamic quantification of pathogen transmission dynamics”
M.Sc. Supervisor: Dr. Jeff Joy, Centre for Excellence in HIV/AIDS, UBC
April 22, 2022
Arjun Baghela
B.Sc., Simon Fraser University , 2016
“Identifying predictive gene expression signatures of sepsis severity”
Ph.D. Supervisors: Dr. Robert Hancock, Microbiology and Immunology and Dr. Gabriela Cohen Freue, Statistics
April 6, 2022
Connor Morgan-Lang
B.Sc., University of British Columbia, 2009
“Linking function and phylogeny in microbiomes using TreeSAPP”
Ph.D. Supervisor: Dr. Steven Hallam, Microbiology and Immunology, UBC
March 31, 2022
Post-graduation: Scientist for Kookie, Canada Inc, Vancouver, BC
Kristina Gagalova
B.Sc., Alma Mater Studiorum, Bologna, Italy, 2010
M.Sc., Alma Mater Studiorum, Bologna, Italy, 2013
“Annotation of complex genomes for comparative genomics”
Ph.D. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
March 9, 2022
Christine Yang
B.Sc. McGill University, 2019
“Genome-wide association study of Pseudomonas aeruginosa in swarming and biofilm formation”
M.Sc. Supervisor: Dr. Robert Hancock, Microbiology and Immunology, UBC
February 28, 2022
Rashedul Islam
B.Sc., Shahjalal University of Science and Technology, Bangladesh, 2011
“Epigenetic dysregulation in lymphoid leukemias”
Ph.D. Supervisor: Dr. Martin Hirst, Genome Sciences Centre, BCCA
December 6, 2021
Eric Lee
B.Sc. University of British Columbia, 2020
“SpatialSort: Characterizing cellular heterogeneity in the tumour microenvironment with spatially aware clustering ”
M.Sc. Supervisor: Dr. Andrew Roth, Pathology & Laboratory Medicine, UBC
December 1, 2021
Post-graduation: Undertaking a Ph.D. in the Bioinformatics program at UBC.
Diana Lin
B.Sc. McGill University, 2018
“ High throughput in silico discovery of anti-microbial peptides in amphibian and insect transcriptomes”
M.Sc. Supervisor: Dr. Inanc Birol, Medical Genetics, UBC
September 29, 2021
Yue Huang
B.Sc. Sichuan University, China, 2019
“ Single-cell analytics for phospho flow cytometry reveals dynamic interactions between molecular pathways”
M.Sc. Supervisors: Dr. Paul Pavlidis, Psychiatry, UBC and Dr. Kurt Haas, Cellular & Physiological Sciences, UBC
September 27, 2021
Qinkai Wu
B.Sc. Sichuan University, China, 2019
“ Cellular composition variation drives coexpression-based gene function prediction”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
September 23, 2021
Nicole Zhang
B.Sc. (Hon), McMaster University , 2019
“Cell-conditional generative adversarial network ”
M.Sc. Supervisor: Dr. Wyeth Wasserman, Medical Genetics, UBC and Sara Mostafavi, Computer Science & Engineering, University of Washington, Seattle, WA.
August 6, 2021
Post-graduation: Machine Learning research intern at Deep Genomics, Toronto, Ontario
Kristina Wright
B.Sc., Simon Fraser University, 2019
“Seasonal and sex-dependent gene expression in Emu (Dromaius novaehollandiae) fat tissues ”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Science Centre, BCCA
August 5, 2021
Jordan Sicherman
B.Sc., University of Waterloo, 2019
“Large-scale mining of differential expression data for insight into gene function ”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
August 5, 2021
Post-graduation: Scientist I/II – Bioinformatics at Notch Therapeutics, Vancouver, B.C.
Denitsa Vasileva
B.Sc., University of Toronto, 2019
“Assessing accuracy and utility of epigenetic age prediction algorithm in a large scale targeted methylation sequencing study”
M.Sc. Supervisor: Dr. Denise Daley, Medicine, UBC
August 3, 2021
Post-graduation: Undertaking a Ph.D. in the Bioinformatics program at UBC.
Alice Kaye
B.A. and M.Sc., Oxford University, UK, 2014
Approaches to genome analysis through the application of graph theory”
Ph.D. Supervisor: Wyeth Wasserman, BC Children’s Hospital Research Institute, UBC
July 27, 2021
Chen Yang
M.Sc., King Abdullah University of Science and Technology, Saudi Arabia, 2013
B.Sc., China Pharmaceutical University, 2011
“Computational modelling, simulation, and prediction of biological sequences”
Ph.D. Supervisor: Inanc Birol, Genome Sciences Centre, BCCA
June 7, 2021
Vladimir Nikolic
B.Sc., University of Belgrade, 2018
“Scalable methods for improving genome assemblies”
M.Sc. Supervisor: Inanc Birol, Genome Sciences Centre, BCCA
April 19, 2021
Post-graduation: Bioinformatician at Genome Sciences Centre, BCCA
Yee Fay Lim
M.Sc., University of Chicago, 2011
B.Sc., University of Chicago, 2008
“Copy number estimation for high-throughput short read shotgun sequencing de novo whole genome assembly contigs”
M.Sc. Supervisor: Inanc Birol, Genome Sciences Centre, BCCA
February 26, 2021
Post-graduation: Machine learning engineer at Versatile Media, a film and animation studio, Vancouver.
Teyden Nguyen
B.Sc., University of Waterloo, 2016
“Evaluating feature selection techniques for finding microbial signatures in 16S microbiome sequencing data”
M.Sc. Supervisors: Dr. Raymond Ng, Computer Science and Sara Mostafavi, Statistics, UBC
February 25, 2021
Post-graduation: Software Engineer on the Data Engineering team at BenchSci, Toronto, Ontario.
Michael Disyak
B.Sc., Computing Systems, Honours, Trent University, 2016
B.Sc., Biological Sciences, Brock University, 2011
“A multi-task machine learning pipeline for the classification and analysis of cancers from gene expression data”.
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre BCAA
February 3, 2021
Post-graduation: Projects Manager, BC Cancer Agency
Javier Castillo Arnemann
B.Sc., Instituto Tecnologico y de Estudios Superiores de Monterrey, Mexico, 2018
“Network based integration and visualization of high-throughput datasets in Pseudomonas aeruginosa “.
M.Sc. Supervisor: Dr. Robert Hancock, Microbiology & Immunology, UBC
January 25, 2021
Sohrab Salehi
B.Eng. Amirkarbir University of Technology, Iran, 2011
“Quantitative fitness modelling in cancer using single-cell time series population dynamics.”
Ph.D. Supervisors: Drs. Sohrab Shah and Alexandre Bouchard-Cote , Pathology & Laboratory Medicine, UBC
January 25, 2021
Elizabeth Chun
B.Sc. University of British Columbia, 2004
M.Sc. University of British Columbia, 2010
“Molecular characterization pf rhabdoid tumours from multiple anatomical sites.”
Ph.D. Supervisor: Dr. Marco Marra, Genome Sciences Centre, BCCA
December 9, 2020
Sina Jafarzadeh
B.Sc., Sharif University of Technology, 2014
M.Sc., Sharif University of Technology, 2016
“Interpretable clustering of epigenetic marks by incorporating their relationships to genes and their functions”.
M.Sc. Supervisor: Dr. Sara Mostafavi, Medical Genetics and Statistics, UBC
December 4, 2020
Post-graduation: Pursuing a Ph.D
Shamsuddin Bhuiyan
B.Sc. University of Calgary. 2014
“Prioritizing genes with functionally distinct splice isoforms”
Ph.D. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
November 24 , 2020
Post-graduation: Post-doctoral fellowship at Renthal Lab at Brigham & Women’s Hospital and Harvard Medical School
Phillip Richmond
B.Sc. University of Colorado-Boulder, 2012
“Expanding the utility of whole genome sequencing in the diagnosis of rare genetic disorders”
Ph.D. Supervisor: Dr. Wyeth Wasserman, Centre for Molecular Medicine & Therapeutics, UBC
October 8, 2020
Post-graduation: Position at BC Children’s Hospital Research Institute focusing on Precision Medicine and Genome Analysis Education
Elijiah Willie
B.Sc., Simon Fraser University, 2018
“Robust methods for inferring cluster structure in scRNA-seq data”.
M.Sc. Supervisor: Dr. Sara Mostafavi, Statistics and Medical Genetics, UBC
October 5, 2020
Abdur Rahman Modh Abul Basher
M.Sc. Concordia University, 2011
B.Sc. King Adbdulaziz University, Saudi Arabia, 2008
“Machine learning methods for metabolic pathway inference from genomic sequence information”
Ph.D. Supervisor: Dr. Steven Hallam, Microbiology & Immunology, UBC
September 18, 2020
Jenny Yang
B.Sc., University of British Columbia, 2019
“Using convolutional neural networks to predict NRG1-Fusions from PDAC biopsy images”.
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
September 2, 2020
Post-graduation: Pursuing a Ph.D.
Divya Bafna
B.Sc.,VIT University, India, 2018
“Rational design of Notch2 and ER-AF2 inhibitors for bladder cancer and breast cancer therapy”.
M.Sc. Supervisor: Dr. Art Cherkasov. Prostate Cancer Centre, Vancouver General Hospital
August 26, 2020
Figali Taho
B.Sc., Bilkent University, Turkey, 2018
“Antimicrobial peptide host toxicity prediction with transfer learning for proteins.”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
August 20, 2020
Post-graduation: Google Inc, in Zurich, Switzerland
Jasleen Grewal
B.Sc. Simon Fraser University, 2015
“Utility of machine learning approaches for cancer diagnosis and analysis from RNA sequencing”
Ph.D. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BC Cancer Agency
August 13, 2020
Shing Zhan
“Phylogenetic analysis of chromosome numbers and genetic markers”
Ph.D. Supervisor: Dr. Sarah Otto, Zoology, UBC
August 8, 2020
Mariia Radaeva
B.Sc., University of Bath, U.K.
“The use of computer-aided drug design methodology to target DNA-protein, RNA-protein and protein-protein interactions implicated in cancer.”
M.Sc. Supervisor: Dr. Art Cherkasov, Vancouver Prostate Centre, Vancouver General Hospital
August 6, 2020
Post-graduation: Undertaking a Ph.D. with Dr. Art Cherkasov in Bioinformatics graduate program at UBC.
Emre Erhan
B.Sc., Simon Fraser University, 2018
“Support vector machines predict advanced cancer patient response to therapies from bulk RNA sequencing data.”
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
July 23, 2020
Post-graduation: Software Engineer in Test – Computational Biology at 10x Genomics based in Pleasanton, California.
Michelle Kang
B.Sc.University of British Columbia, 2018
“Linking CIS-regulatory regions using transcription factor binding signatures.”
M.Sc. Supervisor: Dr. Wyeth Wasserman, Child & Family Research Institute, BCCH
June 12, 2020
Post-graduation: Consulting for Deloitte, Toronto, Ontario
Evan Gatev
“DNA methylation microarray data reduction for co-methylation analysis”
Ph.D. Supervisors: Drs Michael Kobor, Medical Genetics, UBC and Sara Mostafavi, Statistics, UBC
April 20, 2020
Alexandra Maslova
B.Sc.University of British Columbia, 2013
“Understanding gene regulatory mechanisms of mouse immune cells using a convolutional neural network”
M.Sc. Supervisor: Dr. Sara Mostafavi, Statistics, UBC
April 15, 2020
Sherrie Wang
B.Sc.University of British Columbia, 2017
“Flow cytometry data analysis pipeline – data quality control tool development and biomarker discovery”
M.Sc. Supervisor: Dr. Ryan Brinkman, BC Cancer Research Centre, UBC
April 8, 2020
Carl-Adam Mattsson
B.Sc. Kristianstad University College, 2010
Diploma Skovde University College, 2017
A bioinformatics workflow to analyse single cell template strand sequencing data”
M.Sc. Supervisor: Drs. Peter Lansdorp and Martin Hirst, BC Cancer Research Centre, BCAA and Microbiology & Immunology, UBC
April 6, 2020
Marjan Farahbod
B.Sc. University of Tehran, Iran 2010
M.Sc. Chalmers University of Technology, Gothenburg, Sweden 2012
“The interpretation of gene coexpression in systems biology”
Ph.D. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
December 11, 2019
Margot Gunning
B.Sc. (Hons) Queen’s University, 2017
“An investigation into the utility of GBA machine learning algorithms for the prioritization of ASD candidate risk genes”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry, UBC
December 6, 2019
Justin Chu
B.Sc. University of British Columbia, 2013
“Improving sequence analysis with probabilistic data structures and algorithms”
Ph.D. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
November 22, 2019
Allison Tai
B.Sc. University of British Columbia, 2016
“Error-free stable computation with polymer-supplemented chemical reaction networks”
M.Sc. Supervisor: Dr. Anne Condon, Computer Science, UBC
October 9, 2019
My-Linh Thibodeau
D.E.C. Trois-Rivieres, Quebec, 2006
M.D. Laval University, Quebec, 2013
“Using genome sequencing technology to provide insight into cancer biology and other mechanisms”
M.Sc. Supervisors: Dr. Steven Jones and Intan Schrader, Genome Sciences Centre, BCCA
October 4, 2019
Vibudh Agrawal
B.Tech. Indian Institute of Technology, 2017
“The discovery of small molecule inhibitors for TOX1 and ERG oncotargets with the development and use of progressive docking PD2.0 approach”
M.Sc. Supervisor: Dr. Artem Cherkasov, Vancouver Prostate Centre, Vancouver General Hospital
September 30, 2019
Post-graduation: Machine Learning Developer at Motion Metrics, Vancouver, B.C.
Theodore Smith
B.Sc. University of Arizona, 2016
“Detection of enriched patterns in protein sequence data”
M.Sc. Supervisor: Dr. Phillip Lange, Pathology and Laboratory Medicine, UBC
August 23, 2019
Allen Zhang
B.Sc. University of British Columbia, 2013
“Evolutionary dynamics of ovarian cancer microenvironments and tumour cells”
M.D./Ph.D. Supervisor: Dr. Sohrab Shah, Genome Sciences Centre, BCCA
May 30, 2019
Shaun Jackman
B.Sc. Simon Fraser University, 2005
“Efficient assembly of large genomes”
Ph.D. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
April 16, 2019
Post-graduation: Computational Biologist at 10X Genomics, Vancouver, B.C.
Nivretta Thatra
B.Sc. University of Washington, 2014
“Comparative genome analysis in rodent models of Parkinson’s disease and spinocerebellar ataxia type 3”
M.Sc. Supervisor: Dr. Joerg Gsponer, Biochemistry and Molecular Biology, UBC
April 5, 2019
Varune Rohan Ramnarine
B.Cs. University of Waterloo, 2008
“The long non-coding RNA landscape of neuroendocrine prostate cancer and its clinical implications, biological dysregulation, and functional impact”
Ph.D. Supervisor: Dr. Colin Collins, Vancouver Prostate Centre, VGH
March 11, 2019
Post-graduation: Bioinformatic Data Analyst at Ontario Cancer Institute
Rebecca Asiimwe
M.Sc. Uganda Christian University, 2014
B.Sc. Uganda Christian University, 2007
“Database-driven whole genome profiling for stratifying triple negative breast cancers (TNBC)”
M.Sc. Supervisor: Dr. Sohrab Shah, BBC Cancer Research Centre, UBC
March 4, 2019
Emma Graham
B.Sc. Yale University, 2016
“Integration of genomic and metabolomic data for the prioritization of rate disease variants”
M.Sc.. Supervisor: Dr. Sara Mostafavi, Centre for Molecular Medicine & Therapeutics and Statistics, UBC
October 30, 2018
Post-graduation: Research Associate in the Mostafavi lab, Vancouver, B.C.
Zaccary Alperstein
B.Sc. University of Western Ontario, 2014
“Computer-aided drug discovery tools and pipelines for small molecule targeted inhibition of topoisomerases I and II in cancer”
M.Sc.. Supervisor: Dr. Art Cherkasov, Prostate Cancer Centre, Vancouver General Hospital
October 19, 2018
Post-graduation: Bioinformatician working at D-Wave, Vancouver, B.C.
Sam Hinshaw
B.Sc. University of Pittsburgh, PA, USA 2013
“Network-based integrative analysis of multi-omic data”
M.Sc.. Supervisor: Dr. Robert Hancock, Microbiology & Immunology, UBC
October 4, 2018
Post-graduation: Bioinformatician working at AbCellera, Vancouver, B.C.
Jake Lever
B.Eng. University of Edinburgh, 2009
“Building and inferring knowledge bases using biomedical text mining”
Ph.D. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BC Cancer Agency
September 21, 2018
Post-graduation: Post-doctoral studies at Stanford University California.
Raunak Shrestha
B.Sc. Kathmandu University, Nepal, 2009
“Computational prioritization of cancer driver genes for precision oncology”
Ph.D. Supervisor: Dr. Colin Collins, Urological Sciences, Vancouver Prostate Centre
July 27, 2018
Post-graduation: Post-doctoral studies in Dr. Collins Lab, Vancouver Prostate Centre.
Farnush Kiadeh
B.Sc. Sharif University, Iran, 2015
“Molecular interpretation of genome-wide association studies using multi-omics analysis”
M.Sc.. Supervisor: Dr. Sara Mostafavi, Statistics and Medical Genetics
May 31, 2018
Post-graduation: Data scientist at the Hospital for Sick Children in Toronto, Canada.
Eric Zhao
B.Sc. Hon., University of British Columbia, 2013
“The clincal actionability and evolution of mutational processes in metastatic cancer”
M.D./Ph.D. Supervisor: Dr. Steve Jones, Genome Science Centre, BCCA
May 7, 2018
Rebecca Johnston
B.Sc. University of Queensland, 2010
“The biology and clinical significance of the micro-environment of pediatric Hodgkin lymphoma”
M.Sc.. Supervisor: Dr. Christian Steidl, BC Cancer Research Centre
March 15, 2018
Post-graduation: Working in Australia.
Rodrigo Goya
B.Sc. Instituto Technologico y de Estudios Superiores de Montrerrey, Mexico, 2000
“Bioinformatic approaches for identifying single nucleotide variants and profiling alternative expression in cancer transcriptomes”
Ph.D. Supervisor: Dr. Marco Marra, Genome Science Centre, BCCA
November 22, 2017
Post-graduation: Working for Industrial company in Vancouver, B.C.
Rachelle Farkas
B.Sc.Queen’s University, 2012
“Bioinformatics design of cis-regulatory elements controlling human gene expression”
M.Sc. Supervisor: Dr. Wyeth Wasserman, Centre for Molecular Medicine & Therapeutics, BC Children’s Hospital
October 5, 2017
Post-graduation: Working as a bioinformatician in Dr. Wyeth Wasserman lab – CMMT
Ka Ming Nip
B.Sc. University of British Columbia , 2011
“RNA-Bloom: de novo RNA-seq assembly with Bloom filters”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Science Centre, BCCA
August 4, 2017
Post-graduation: Undertaking Ph.D. degree at UBC in the Bioinformatics graduate program.
William Evan Durno
B.A., University of British Columbia, 2012
“Precise correlation and metagenomic biomining uncovers fine microbial community structure”
M.Sc. Supervisor: Dr. Steven Hallam, Microbiology & Immunology, UBC
June 2, 2017
Post-graduation: Data Scientist at KPMG US.
Wenqiang Shi
MSc., National University of Defense Technology, China, 2011
B.Sc., National University of Defense Technology, China, 2009
“Revealing the impact of sequence variants on transcription factor binding and gene expression”
Ph.D. Supervisor: Wyeth Wasserman, Children & Family Research Institute, Vancouver, BC
May 23, 2017
Post-graduation: Post-doctoral studies.
Hamid Mohamadi
MSc., McMaster University, 2012
B.Sc., Sharif University, Iran, 2004
“Parallel algorithms and software tools for high-throughput sequencing data”
Ph.D. Supervisor: Dr. Inanc Birol, Genome Science Centre, BCAA
May 23, 2017
Post-graduation: Post-doctoral studies.
Kyle Lesack
BSc., University of Calgary, 2013
Nomenclature errors in public 16S rRNA gene databases: strategies to improve the accuracy of sequence annotations”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Science Centre, BCAA
May 9, 2017
Alborz Seyed Mazloomian
MSc., Sharif University, Iran, 2010
B.Sc., Sharif University, Iran, 2008
“A systems biology study of alternative splicing regulations and functions”
Ph.D. Supervisors: Drs. Sohrab Shah and Irmtraud Meyer, BC Cancer Research Centre, BCCA
March 10, 2017
Post-graduation: Post-doctoral studies.
Erdi Kucuk
BSc., Bilkent University, Turkey 2013
“Kollector: transcript-informed targeted de novo assembly of gene loci”
Ph.D. Supervisor: Dr. Inanc Birol, University of British Columbia
April 10, 2017
Post-graduation: Doctoral studies in Turkey.
Beryl Zhuang
BSc., University of British Columbia 2009
“Meta-analysis of gene expression in mouse models of neurogenerative disorders”
Ph.D. Supervisor: Dr. Paul Pavlidis, University of British Columbia
March 24, 2017
Fong Chun Chan
MSc., University of British Columbia 2011
B.Sc., Simon Fraser University, 2009
“Analysis of cancer genomes and transcriptomes”
Ph.D. Supervisors: Drs. Christian Steidl and Sohrab Shah, BC Cancer Research Centre, BCCA
March 10, 2017
Post-graduation: Post-doctoral studies in the UK.
Celia Siu
B.Sc., University of British Columbia, 2013
“Characterization of the human thyroid epigenome”
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
February 28, 2017
Post-graduation: Data Manager Engineer at Visier, Vancouver.
Santina Lin
B.Sc., McGill University, 2014
“Latent semantic analysis for retrieving related biomedical articles”
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
February 22, 2017
Post-graduation: Software Engineer at MicroSoft.
Dmitry Tebaykin
B.Sc., University of British Columbia, 2013
“Exploring sources of variability in electrophysiology data of mammalian neurons”
M.Sc. Supervisor: Dr. Paul Pavlidis, Michael Smith Labs, UBC
December 12, 2016
Post-graduation: Data Analyst at Stanford Blood Centre.
Michael Gottlieb
B.Sc., University of British Columbia, 2014
“Text-based methods of variant prioritization for TIDE BC”
M.Sc. Supervisor: Dr. Wyeth Wasserman, Child & Family Research Institute, BCCH
December 8, 2016
Post-graduation: Software Engineer at Tabletop.
Hamza Khan
B.Tech. VIT University, India, 2014
“De Novo annotation of non-model organisms using whole genome an transcriptome shotgun sequencing”
M.Sc. Supervisor: Dr. Inanc Birol, Genome Sciences Centre, BCCA
December 7, 2016
Post-graduation: Bioinformatician at Ontario Institute for Cancer Research.
Naman Paul
B.Tech (Hons) Amity University, Rajasthan, India, 2013
“The use of cheminformatics methods to predict adverse drug responses by human androgen receptor”
M.Sc. Supervisor: Dr. Artem Cherkasov, Vancouver Prostate Centre, VGH
November 8, 2016
Post-graduation: Statistical Healthcare Data Analyst at BPI-INC.
Julie Chen
B.Sc. University of British Columbia, 2002
M.Sc. National Tsing-Hua University, Taiwan, 2005
M.Sc. University of Toronto, 2011
“Computational analysis of transcriptional regulation from local sequence features to three dimensional chromatin domains”
Ph.D. Supervisor: Dr. Wyeth Wasserman, CFRI, UBC
September 8, 2016
Post-graduation: Post-doctoral studies.
Maia Smith
B.Sc. Simon Fraser University, 2014
“E-scape: interactive visualization of single cell phylogenetics and spatio-temperal evolution in cancer”
M.Sc. Supervisor: Dr. Sohrab Shah, BC Cancer Research Centre, BC Cancer Agency
August 29, 2016
Post-graduation: Bioinformatics Engineer at AbCellera, Vancouver, BC.
Rosemary McCloskey
B.Sc. Simon Fraser University, 2014
“Phylogenetic estimation of contact network parameters with approximate Bayesian computation”
M.Sc. Supervisor: Dr. Art Poon, BC Centre of Excellence in HIV/AIDS
July 26, 2016
Post-graduation: Working for Google- Bay Area, California.
Thuy Nguyen
B.Sc. University of Toronto, 2013
“Overcoming missing data in phylogenetic analysis of shotgun sequencing to detect HIV adaptation to immune response”
M.Sc. Supervisor: Dr. Art Poon, BC Centre of Excellence in HIV/AIDS
June 10, 2016
Casper Shyr
B.Sc. University of British Columbia, 2010
“Development and evaluation of software interface for applied clinical genomics”
Ph.D. Supervisor: Dr. Wyeth Wasserman, CFRI, UBC
April 21, 2016
Post-graduation: System Analyst for Fraser Health Authority.
Dean Attali
B.Sc. University of Waterloo, 2013
“Automatic analysis of dual-channel droplet digital PCR experiments to detect BRAF-V600 mutations”
M.Sc. Supervisor: Dr. Jennifer Bryan (Statistics, UBC)
April 21, 2016
Lauren Chong
B.Sc. University of Waterloo, 2013
“Detection of genomic rearrangements in archival lymphoma tissues using targeted capture sequence”
M.Sc. Supervisor: Drs. Christian Steidl (Pathology, UBC) and Ryan Morin (MBB, SFU)
March 23, 2016
Post-graduation: Computational Biologist at BC Cancer Agency.
Daniel Lai
B.Sc. University of British Columbia, 2010
“Computational analysis of ribonucleic acid basepairs in RNA structure and RNA-RNA interactions”
Ph.D. Supervisor: Dr. Irmtraud Meyer & Paul Pavlidis, CHiBi, UBC
March 7, 2016
Post-graduation: Senior Bioinformatics Specialist.
Emilia Lim
B.Sc. University of Alberta, 2009
“miRNA sequence analysis reveals cancer subtypes that correlate with tumour characteristics and patient outcomes”
Ph.D. Supervisor: Dr. Marco Marra, Genome Sciences Centre, BCAA
March 4, 2016
Post-graduation: Principal research associate at the Francis Crick Institute, UK.
Sohrab Salehi
B.Sc. Amirkabir University of Technology, Tehran, Iran, 2011
“dd-PyClone: Improving clonal sub-population inference from single cells and bulk sequencing data”
M.Sc. Supervisor: Dr. Sohrab Shah, Genome Sciences Centre, BCAA & Dr. Alex Bouchard, Statistics, UBC
December 14, 2015
Post-graduation: Undertaking a Ph.D. with Dr. Sohrab Shah & Dr. Alex Bouchard, Bionformatics graduate program.
Andrew Roth
B.Sc. University of British Columbia, 2009
“Probabilistic models for the identification and interpretation of somatic single nucleotide variants in cancer genomes”
Ph.D. Supervisor: Dr. Sohrab Shah, Genome Sciences Centre, BCAA
November 26, 2015
Post-graduation: Post-doctoral studies.
Katayoon Kasaian
B.Sc. University of British Columbia, 2005
B.CS. University of British Columbia, 2009
“Genomic analysis of head and neck endocrine glands”
Ph.D. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCAA
September 2, 2015
Post-graduation: Post-doctoral fellow at Ontario Institute for Cancer Research.
Alice Zhu
B.Sc. University of British Columbia, 2011
“Beyond the one-sequence one-structure dogma: predicting and analyzing transient and alternative RNA secondary structures that are evolutionarily conserved”
M.Sc. Supervisor: Dr. Irmtraud Meyer, Computer Science, UBC
August 28, 2015
Post-graduation: Ph.D. in Genome Science & Technology, UBC.
Emily Hindalong
B.Sc. University of British Columbia, 2011
“A study of methods for learning phylogenies of cancer cell populations from binary SNV profiles”
M.Sc. Supervisor: Dr. Sohrab Shah, Computer Science & Pathology, UBC
August 10, 2015
Post-graduation: Ph.D. in Computer Science, UBC.
Huifang Li
B.Sc. China Pharmaceutical University, 2007
M.Sc. China Pharmaceutical University, 2010
“Discovery of novel androgen receptor inhibitors as prospective therapeutics for advanced prostate cancer ”
Ph.D. Supervisor: Dr. Art Cherkosov, Urological Sciences, Medicine, UBC
July 16, 2015
Post-graduation: Computational chemist at a company in Montreal, Canada
Sarah Perez
B.Sc. McGill University, 2012
“Exploring microbial community structure and resilience through visualization and analysis of microbial co-occurrence networks ”
M.Sc. Supervisor: Dr. Steven Hallam, Microbiology & Immunology, UBC
May 22, 2015
Post-graduation: Data Scientist.
Calvin Lefebvre
B.Sc. University of Toronto, 2011
“Cis-regulatory somatic mutations and gene expression alteration in B cell lymphomas”
M.Sc. Supervisor: Dr. Sohrab Shah, Computer Science and Pathology, UBC
May 12, 2015
Post-graduation: Working at a fusion energy company in Burnaby, BC.
Niels Hanson
B.Sc. University of British Columbia, 2011
“MetaPathways: A module pipeline for the analysis of environmental sequence information”
Ph.D. Supervisor: Dr. Steven Hallam, Microbiology and Immunology, UBC
April 1, 2015
Post-graduation: Lead Specialist, Data Scientist at KPMG US.
Alvin (Xi) Tian
B.Sc. University of British Columbia, 2011
“The use of high-throughput amplicon deep sequencing to explore aquatic virus communities”
M.Sc. Supervisor: Dr. Curtis Suttle, Earth, Ocean and Atmospheric Sciences, UBC
March 20, 2015
Post-graduation: Working as a computer software engineer in Japan.
Tyler Funnell
B.Sc. University of Northern British Columbia, 2009
“Transcriptomic consequences of RNA processing disruption via a novel CDC-like kinase inhibitor”
M.Sc. Supervisor: Dr. Sohrab Shah, British Columbia Research Centre, BC Cancer Agency
December 2, 2014
Post-graduation: Undertaking a PhD at UBC with Dr. Sohrab Shah.
Christine Rebecca Hunt
B.Sc. University of British Columbia, 2003
“Improving the detection of transcription factor binding regions”
Ph.D. Supervisor: Dr. Wyeth Wasserman, Child & Family Research Institute, UBC
November 24, 2014
Post-graduation: Post-doctoral studies at Max Delbruck Centre, Berlin, Germany
Adriana Estela Sedeño Cortés
B.Sc. National Autonomous University of Mexico, 2012
“Identification and exploration of gene product annotation instability and its impact on current uses ”
M.Sc. Supervisor: Dr. Paul Pavlidis, Centre for High Through-put Biology, UBC
October 9, 2014
Kieran O’Neill
B.Sc. University of Natal, 2002
B.Sc.(Hon) University of KwaZulu-Natal, 2004
M.Sc. University of KwaZulu-Natal, 2008
“Bioinformatics of flow cytometry and other high through-put single cell methods ”
Ph.D. Supervisor: Dr. Ryan Brinkman, BC Cancer Research Centre, BC Cancer Agency
October 8, 2014
Post-graduation: Post-doctoral studies at BC Cancer Agency
Gavin Ha
B.Sc. University of British Columbia, 2008
“Probabilistic Approaches for profiling copy number aberrations and loss of heterozygosity landscapes in cancer genomes ”
Ph.D. Supervisors: Drs. Sohrab Shah and Sam Aparicio, BC Cancer Research Centre, BC Cancer Agency
June 27, 2014
Post-graduation: Post-doctoral studies at Broad Institute, MIT and Harvard.
Melanie Courtot
B.Sc. Universite Louis Pasteur, 2000
M.Sc. Universite Louis Pasteur, 2002
“Semantic models in Biomedicine: Building interoperating ontologies for biomedical data representation and processing in Pharmacovigilance”
Ph.D. Supervisor: Dr. Ryan Brinkman, BC Cancer Research Centre, BC Cancer Agency
May 12, 2014
Post-graduation: Project Leader EMBL-EBI.
Carolyn Ch’ng
B.Sc. University of Michigan, 2011
“Meta analysis of gene expression in individuals with austism spectrum disorders”
M.Sc. Supervisor: Dr. Paul Pavlidis, CHiBi, UBC
August 16, 2013
Post-graduation: Bioinformatician.
Soroush Samadian
B.Sc. Sharif University of Technology, 2001
M.Sc. University of Tarbiat Modares, 2003
M.Sc. University of Sheffield, 2005
“Constructing and applying semantic models of clinical phenotypes to support web-embedded clinical research”
Ph.D. Supervisor: Dr. Mark Wilkinson, Center for Plant Biotechnology and Genomics, Polytechnic University of Madrid.
June 14, 2013
Young Song
B.Sc. University of Waterloo, 2009
“Exploring microbial controls on methane cycling using MLTreeMap”
M.Sc. Supervisor: Dr. Steven Hallam, Microbiology & Immunology, UBC
April 17, 2013
Post-graduation: Working as a bioinformatician at the Genome Sciences Centre, BCCA.
Patrick Tan
B.Sc. Simon Fraser University, 2010
“Gene expression analysis of human and rodent brains”
M.Sc. Supervisor: Dr. Paul Pavlidis, CHiBi,UBC
November 22., 2012
Post-graduation: Business Analyst at Fraser Health Authority.
Nima Aghaeepour
B.Sc. University of Tehran, 2008
“Computational exploratory analysis of high-dimensional flow cytometry data for diagnosis and biomarker”.
Ph.D. Supervisor, Dr, Ryan Brinkman, BC Cancer Research Centre, BCCA
November 19, 2012
Post- graduation: Assistant Professor at Stanford School of Medicine, California.
Jeff Proctor
BSEng., University of Victoria, 2010
“CoFold : an RNA structure prediction method that takes co-transcriptional folding into account”.
MSc. Supervisor: Dr. Irmtraud Meyer, Computer Science, UBC
September 24, 2012
Evan Morien
BSc. SUNY, Buffalo, NY, 2007
“Characterization of wild salmon transcriptome”
MSc. Suprvisor: Dr. Paul Pavlidis, Psychiatry and CHiBi, University of British Columbia
August 29, 2012
Warren Cheung
B.Sc., UBC, 2003
M.Sc. UBC, 2007
“Inferring novel relationships through over-representation analysis of medical subjects in biomedical bibliographies”.
Ph.D. Supervisors: Dr. Wyeth Wasserman, CMMT, UBC and Frances Ouellette, Ontario Cancer Institute, University of Toronto
July 27, 2012
Post-graduation: Post-doctoral studies.
Meeta Mistry
B.Sc. (Hons). McMaster University, 2005
“Meta-analyses of expession profiling data in the postmortem human brain”.
Ph.D. Supervisor, Dr. Paul Pavlidis, Psychiatry & CHiBi, University of British Columbia
July 6, 2012
Post-graduation: Post-doctoral studies.
Ryan Giuliany
B.Sc., University of British Columbia, 2010
“Probablistic modeling of RNA-editing in human cancers.”
Ph.D. Supervisor: Drs. Sohrab Shah and David Huntsman, BC Cancer Agency
July 5 , 2012
Post-Graduation: .Senior Design Analyst at Riot Games in Santa Monica, California
Olena Morozova
B.Sc. Honours, University of Toronto, 2006
“Genomic studies of the normal and malignant neural crest.”
Ph.D. Supervisor: Dr. Marco Marra, Genome Sciences Centre, BC Cancer Agency
May 1 , 2012
Post-Graduation: Postdoctoral Scholar with David Haussler at the Howard Hughes Medical Institute; University of California, Santa Cruz
Anthony Fejes
B. Sc. University of Waterloo, 2000
B.I.S., University of Waterloo, 2001
M.Sc. University of British Columbia, 2004
“Algorithms and Applications of Next-Generation of DNA Sequencing”
Ph.D. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BC Cancer Agency
March 30, 2012
Post-graduation: Working for a Bioinformatics company in Denmark.
Kendric Wang
B.Cmp. Honours, Queen’s University, 2009
“A Systems Biology Approach for Identifying Predictive Markers of Chemotherapy Response”
M.Sc. Supervisors: Dr. Colin Collins, Prostate Centre, Vancouver General Hospital and Dr. Cenk Sahinalp, Computing Science, SFU
March 13, 2012
Leon French
B.Sc. Computer Science, University of Windsor, 2003
M.Sc. Computer Science, University of Windsor, 2005
“Bioinformatics for Neuroanatomical Connectivity”
Ph.D. Suprvisor: Dr. Paul Pavlidis, Psychiatry and CHiBi, UBC
January 27, 2012
Post-graduation: Scientist at Centre for Addiction and Mental Health.
Fong Chun Chan
B.Sc. Simon Fraser University, 2009
“Detection of differentially expressed alternative transcripts using conventional microarrays”
M.Sc. Supervisor: Dr. Randy Gascoyne, BC Cancer Agency
December 16 , 2011
Post-Graduation: Undertaking PhD at University of British Columbia.
Ryan Morin
B.Sc., Simon Fraser University, 2003
M.Sc., University of British Columbia, 2007
“Mutation discovery and characterization in lymphoid neoplasms using massively parallel RNA an DNA sequencing”
Ph.D. Supervisor: Dr. Marco Marra, Genome Sciences Centre, BC Cancer Agency
December 15, 2011
Post-Graduation: Assistant professor at Simon Fraser University.
Yvonne Li
B.Sc. University of British Columbia, 2003
“Bioinfomatics Approaches to drug Repositioning”
Ph.D. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BC Cancer Agency
November 21, 2011
Post-Graduation: Post-doctoral studies at the Genome Sciences Centre, BCCA, Vancouver, BC.
Raymond Lim
B.Sc., University of British Columbia, 2008
“Wide-scale comparison of transcriptome data and the role of microRNA in major depression and suicide.”
M.Sc. Supervisor: Dr. Paul Pavlidis, Psychiatry and CHiBi, UBC
August 19, 2011
Post-Graduation: Bioinformatician in Dr. Randy Gascoyne’s lab, BC Cancer Agency, Vancouver, BC.
Ben Vandervalk
B. Math. (Computer Science), University of Waterloo, 2004
“The SHARE System: A Semantic Web Based Approach for Evaluating Queries Across Distributed Bioinformatics Databases and Software”
M.Sc. Supervisor: Dr. Mark Wilkinson, Medical Genetics, UBC
February 3 , 2011
Post-Graduation: Bioinformatician at Genome Sciences Centre, BCCA.
Adam Hall
B.Sc., University of Cambridge, 2007
“Short-read DNA sequence alignment with custom designed FPGA-based hardware”
M.Sc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
November 3, 2010
Post-Graduation: Undertaking a PhD at Cambridge Computer Lab, UK.
Varun Ramraj
B.Sc. University of British Columbia, 2008
“Computational analysis of clinical practice guidelines”
M.Sc. Supervisor: Dr. Kendall Ho, Emergency Medicine, UBC
September 17, 2010
Post-Graduation: Undertaking a Ph.D. with Dr. Robert Esnouf at Oxford University, UK.
Anamaria Crisan
B.Comp., Queen’s University, 2008
“Mutation discovery in regions of segmental cancer genome amplifications from next generation sequencing of tumours”
M.Sc. Supervisor: Drs. Sam Aparicio and Sohrab Shah, Pathology, UBC
September 14, 2010
Post-Graduation: Computational biologist at a Vancouver genomics company.
Nicholas Wiebe
B.Sc. Honors, University of Alberta, 2007
“Transat: a method for detecting evolutionarily coserved helices in alignments of RNA sequences and its application in identifying transient or alternative structures”.
MSc. Supervisor: Dr. Irmtraud Meyer, Computer Science, UBC
August 30, 2010
Elizabeth (Hye-Jung) Chun
B.Sc. University of British Columbia, 2004
“Bioinformatics approach to investigate genetic differences underlying breast tumours with specific outcomes of adoptive T-Cell therapy using a mouse model”
MSc. Supervisor: Dr. Steven Jones, Genome Sciences Centre, BCCA
August 17, 2010
Post-Graduation: Computational biologist at the Genome Sciences Centre, BCCA.
Kelvin (Xi) Zhang
B.Sc. Honors, East China Normal University, 1998
M.Sc. University of Windsor, 2004
“Knowledge Discovery from Large-scale Biological Networks and their Relationships”
Ph.D. Supervisor: Dr. Francis Ouellette, Informatics and BioComputing, Ontario Institute for Cancer Research
March 30, 2010
Post-Graduation: Post-doctoral studies.
Adrian Cortes
B.Sc. University of British Columbia, 2006
“Automated Analysis of High-Throughput Flow Cytometry Data from Hemoatopoietic Stem Cell Experiments”
M.Sc. Supervisor: Dr. Ryan Brinkman, BC Cancer Research Centre, UBC.
February 11 , 2010
Post-Graduation: Undertaking a Ph.D in Brisbane, Australlia.
Michael Hsing
M.Sc. University of British Columbia, 2005
“Developing Bioinformatics Tools and Analyses on Protein Indels and Protein-Protein Interactions – Novel Applications for Drug Discovery in Staphylococcus aureus”
Ph.D. Supervisor: Dr. Artem Cherkasov, Urologic Sciences, UBC
January 13, 2010
Post-graduation: Undertaking a Post-doctoral fellowship at Harvard Medical School.
Vaneet Lotay
B.Sc. University of Manitoba, 2006
“Evaluating co-expression analysis for gene function prediction”
M.Sc. Supervisor: Dr. Paul Pavlidis – Centre for High Through-put Biology, UBC
December 17, 2009
Post-graduation: Working as a bioinformatician.
Kaida Ning
B.Sc. Zhejiang University, China, 2007
“Biological Insights of Transcription Factor through Analyzing ChIP-Seq Data”
M.Sc. Supervisor: Dr. Raphael Gottardo – Statistics, UBC
September 21, 2009
Post-graduation: Working as a bioinformatician.
Daniel Horspool
B.Sc., University of Victoria, 2005
“Gene Synthesis by Assembly of Short Oligonucleotides”
M.Sc. Supervisor: Dr. Rob Holt – Genome Sciences Centre, BC Cancer Agency
August 6, 2009
Post-graduation: Undertaking a Medical degree at McGill University, Montreal.
Benjamin Good
M.Sc., Univerisity of Sussex, 2000
B.Sc. University of California at San Diego, 1998
“Strategies for amassing, characterizing, and applying third-party metadata in bioinformatics”
PhD. Supervisor: Dr. Mark Wilkinson, Medical Genetics, iCapture Centre, St. Paul’s Hospital
April 3, 2009
Post-graduation: Undertaking a Post-doctoral fellowship at Genomics Institute of the Novartis Research Foundation, San Diego, California.
Tang Lee
B.Sc., University of British Columbia, 2006
“Outcome prediction and genome-transcriptome correlation analysis in classical Hodgkin’s lymphoma”
M.Sc. Supervisor: Dr. Randy Gascoyne, Clinical Professor, Pathology & Laboratory Medicine, University of British Columbia
March 23, 2009
Post-graduation: Working as a bioinformatician in Dr. Randy Gascoyne Lab at the BC Cancer Agency
Xiaohui Chen
B.Sc., Zhejiang University, Hangzhou, China, 2006
“Comparisons of Statistical Modeling for Constructing Gene Regulatory Networks”
M.Sc. Supervisor: Dr. Raphael Gottardo & Kevin Murphy – Statistics, UBC
August 12, 2008
Post-graduation: Undertaking a Ph.D. in Dr. Z. Jane Wang’s lab – Electrical & Computer Engineering, UBC.
Nels Thorsteinson
B.Sc., Queen’s University, Kingston, Ontario, 2005
“Computational Ligand Discovery for the Human and Zebrafish Sex Hormone Binding Globulin”
M.Sc. Supervisor: Dr. Artem Cherkasov – Medicine, University of British Columbia
May 26, 2008
Post-graduation: Working as a bioinformatician at chemical company in Montreal, Quebec.
Shannan Ho Sui
B.Sc. University of British Columbia, 2000
“In silico approaches to investigating mechanisms of gene regulation”
Ph.D. Supervisor: Dr. Wyeth Wasserman – Medical Genetics, Centre for Molecular Medicine and Therapeutics, University of British Columbia
February 27, 2008
Post-graduation: Director, Bioinformatics Core, Harvard T.H. Chan School of Public Health
Simon Chan
B.Sc. Molecular Biology & Biochemistry, Simon Fraser University, 2005
“A Bioinformatics Meta-Analysis of Differentially Expressed Genes in Colorectal Cancer”
MSc. Supervisor: Dr. Steven Jones – Medical Genetics, Genome Sciences Centre, BC Cancer Agency
November 27, 2007
Post-graduation: Working as bioinformatician in Dr. Steven Jones’ lab at the Genome Sciences Centre, BCCA.
Ryan Morin
B. Sc. Molecular Biology & Biochemistry, Simon Fraser University, 2003
“Application of Massively Parellel Sequencing to MicroRNA Profiling and Discovery in Human Embryonic Stem Cells”
MSc. Supervisor: Dr. Marco Marra – Medical Genetics, Genome Sciences Centre, BC Cancer Agency
October 4, 2007
Post-graduation: Undertaking a Ph.D. in Boinformatics graduate program, UBC. in Dr. Marco Marra’s lab- Genome Sciences Centre, BCCA.
Siddhartha Srivastava
B.Sc., Computer Science & Biological Sciences, University of Calgary, 2005
“D-Grip: DNA Genetic Risk Information Profile”
MSc. Supervisor: Dr. Wyeth Wasserman – Medical Genetics, Centre for Molecular Medicine & Therapeutics, University of British Columbia
September 28, 2007
Post-graduation: Undertaking a Medical degree at the University of Calgary, Alberta.
Jessica (Shang-Jung) Lee
B.Sc. Honors, Biochemistry, Queens University, 2003
“Prediction of Graft-versus-Host Disease based on Supervised Temporal Analysis on High-Throughput Flow Cytometry”
M.Sc. Supervisor: Dr. Ryan Brinkman- Medical Genetics, University of British Columbia
April 24, 2007
Post-graduation: Undertaking a PhD in Dr. Robert Kearney’s lab in dept of Biomedical Engineering at McGill University, Montreal.