Members

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Quaid Morris

Principal Investigator

PhD, Massachusetts Institute of Technology

Our lab uses machine learning and artificial intelligence to do biomedical research, focusing on cancer evolution, gene regulation, clinical informatics, and gene function prediction. A key interest is the role of RNA-binding proteins (RBPs) in post-transcriptional regulation. We focus on developing computational and experimental techniques to determine the RNA specificities of RBPs (both sequence and structural) and use these specificities to predict their target transcripts, determine RBP function, and ultimately decipher the regulatory code. Another focus is reconstructing and modelling somatic evolution (pre- and post-cancer) using bulk and single-cell genomic data. In general, we are focused on using large, heterogeneous functional genomic datasets to uncover insights about gene function. Recently, we have becoming increasingly interested in using artificial intelligence and predictive analytics, along with electronic medical records, to inform patient care, particularly in the domain of auto-immune disease.

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Kimberly Skead

Graduate Student

BS, University of Toronto

Kimberly is a PhD student in the Department of Molecular Genetics at the University of Toronto and the Ontario Institute for Cancer Research where she is jointly supervised by Dr. Philip Awadalla and Dr. Quaid Morris. She earned her Hon. B.Sc. from the University of Toronto in 2016 with a double major in Global Health and Genome Biology. Her doctoral research is focused on understanding the evolutionary pressures governing blood dynamics in healthy and precancerous contexts and how these can be used to better predict cancer risk at an individual level.

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Niklas von Krosigk

Graduate Student

BS, University of British Columbia

Nik is a PhD student in the Computational Biology in Molecular Genetics track at the University of Toronto, and is co-supervised by Quaid Morris and Lincoln Stein. He earned a B.Sc (Honours) in Cell and Developmental Biology from the University of British Columbia in 2018. He is working on applying machine learning approaches to single cell sequencing data.

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Jarry Barber

Graduate Student

BScH, Queen's University

Jarry is a PhD student in the CBMG program at the University of Toronto. He earned his Bachelor in Astrophysics from Queen's University in 2013. His research interests include applications of machine learning methods and cancer genetics. He is currently developing tools to reconstruct the evolutionary history of cancers using single-cell sequencing data.

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Kaitlin U Laverty

Graduate Student

BS, University of Toronto

Kaitlin is a PhD student in the Department of Molecular Genetics at U of T. She also completed her B.Sc. degree at U of T, with a major in Molecular Genetics and minor in both Statistics and Computer Science. She is interested in the application of machine learning methods to functional genomics data. Kaitlin is particularly interested in post-transcriptional gene regulation.

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Jingping Qiao

Graduate Student

MS, Northeastern University (Boston)

Jingping is working on multi-omics integration of breast cancer involving genomics, transcriptomics, proteomics and radiomics. She earned BS degree in Applied Mathematics from Saint Louis University, and MS degree in Bioinformatics from Northeastern University. Her interest including Machine Learning and Cancer Genetics.

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Caitlin Harrigan

Graduate Student

MS, Computer Science, University of Toronto

Cait earned her BSc. in Computational Biology, and MSc. in Computer Science at the University of Toronto. Her research interests are centered on machine learning and cancer evolution. Cait is co-supervised by Quaid Morris and Kieran Campbell, currently working on applying topic modeling approaches to understand mutational signatures in cancer evolution.

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Ruian (Ian) Shi

Graduate Student

MSc, University of Toronto

Ian is a PhD student in the University of Toronto's Department of Computer Science. He previously earned his BSc in Computer Science and Bioinformatics and MSc in Computer Science at the University of Toronto. Ian is interested in deep time series methods, deep generative models, and machine learning applications in the health and biology domains.

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Olga Lyudovyk

Graduate Student

MA, Columbia University

Olga is a PhD student in the Tri-I CBM program. She earned a Master degree in Biomedical Informatics from Columbia University in 2018, an MBA from INSEAD, and a Bachelor degree from New Mexico State University. She is building NLP-inspired deep learning models to understand the specificity of the adaptive immune system in order to design cancer cell therapies.

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Madison Darmofal

Graduate Student

BS, MIT

Madison graduated from MIT in 2019 with a degree in Computer Science and Biology. She then entered the Tri-Institutional Computational Biology & Medicine program, and is co-supervised by Quaid Morris and Mike Berger. She is interested in the field of precision oncology, specifically in using machine learning techniques to improve cancer treatment and patient outcomes. Madison is currently working on developing models for cancer diagnosis and detection using clinical genomic assays.

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Cyrus Tam

Graduate Student

BA, New York University

Cyrus Tam is a student in the CBM program with a BA in Biology from NYU. He is interested in understanding how in vivo RNA structures impact RBP binding and their applications in cancer progression.

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Ilyes Baali

Graduate Student

MS, Computer Engineering, Antalya Bilim University

Ilyes is a PhD student in the Tri-I CBM program. He earned Bachelor of Science degrees in Electrical & Electronics Engineering and in Computer Engineering from Antalya Bilim University (ABU) in 2017. and Master of Science in Electrical and Computer Engineering from ABU. He is interested in the application of machine learning methods to functional genomics, particularly in understanding post-transcriptional regulation.

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Aditya Sinha

Graduate Student

MS, Electrical Engineering, Columbia University

Aditya is a PhD student in Tri-I Computational Biology & Medicine, mainly interested in studying regulation of gene expression using mathematical modeling. He did his B.Tech. and MS in Electrical Engineering.

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Ethan Kulman

Graduate Student

M.S, Computer Science, University of Rhode Island

Ethan is a Research Associate in the Morris Lab focused on developing computational methods to help us better understand cancer evolution. His research interests include machine learning, and the genetic factors of disease.

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Leah Morales

Graduate Student

MS, New York University

Leah is a PhD student in the Tri-Institutional Computational Biology & Medicine program. She graduated with a Bachelor of Science degree in Mathematics from the University of Wisconsin-Madison in 2015 and a Master of Science in Bioinformatics from New York University in 2020. Leah is interested in developing and applying computational methods to characterize cancer progression using single cell sequencing data.

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Ellen Mammen

Administrative Assistant

Alumni

Name

Morris Lab Position

Current Position

Anna GoldenbergResearch AssociateAssociate Professor in Computer Science, Univ Toronto
Shankar VembuResearch AssociateFounder: argmix a technology consulting firm specializing in machine learning
Gavin GrayResearch AssociatePostdoctoral Research Fellow, Vector Institute, Toronto
Linda SundermannResearch AssociateResearch Scientist, Silicon Valley start-up
Alina SelegaResearch AssociatePostdoctoral Research Fellow, Lunenfeld Research Institute, Toronto
Arttu JolmaResearch AssociatePostdoctoral Research Fellow, Hughes Lab, Toronto
Rozita RazaviResearch AssociateAssociate Research Scientist, University Health Network
Debashish RayResearch AssociateSenior Research Associate, Hughes Lab, Toronto
Gurnit AtwalGraduate StudentPostdoctoral Research Fellow, Memorial Sloan Kettering Cancer Center, New York
Yulia RubanovGraduate StudentResearch Scientist, Deep Mind, London
Chris CremerGraduate StudentResearch Intern, Facebook AI, Pittsburgh
Simon EngGraduate StudentData Scientist, BioSymetrics, Toronto
Kevin HaGraduate StudentLead Data Scientist, BioSymetrics, Toronto
Amit DeshwarGraduate StudentResearch Scientist, Deep Genomics
Mohammed (Martin) Hossein RadfarGraduate StudentResearch Assistant Professor in Computer Science, Stony Brook University
Xiao LiGraduate StudentAssistant Professor, Case Western University
Hilal KazanGraduate StudentAssociate Professor, Computer Science, Antalya Bilim University
Gerald QuonGraduate StudentAssistant Professor, Computer Science at University of California Davis
Sara MostafaviGraduate StudentAssociate Professor, Computer Science, University of Washington, Canada CIFAR AI chair
Amir KhasahmadiGraduate StudentResearch Scientist at Autodesk AI lab
Wei JiaoGraduate StudentResearch Scientist at Ontario Institute for Cancer Research
David Warde-FarleyGraduate StudentResearch Scientist at DeepMind, London
Sepand MavandadiGraduate StudentSoftware engineer at Amazon
Seong Woo HanGraduate StudentGraduate Student, University of Pennsylvania
Chenlian (Tom) FuUndergraduate Student