Recent Biochemistry Graduates and Alumni

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Alumni Listing: 2011 Graduates

Ph.D. Degrees

Joanne Hsieh

Supervisor: Khosrow Adeli

Thesis Title: The Acute Regulation of Intestinal Chylomicron Secretion by Glucagon-Like Peptides

Dec. 8th

Wilson Lau

Supervisor: John Rubinstein

Thesis Title: Structural characterization of the F- and V-ATPase/synthase by single particle electron cryomicroscopy

Usheer Kanjee

Supervisor: Walid Houry

Thesis Title: Structural and Functional Studies on the Escherichia coli Inducible Lysine Decarboxylase: Linking the Acid Stress and Stringent Responses

Dec. 2nd

Christopher Helsen

Supervisor: John Glover

Thesis Title: Elucidating the interaction between the molecular chaperone Hsp104 and the yeast prion Sup35

Sarah Rauscher

Supervisor: Regis Pomes

Thesis Title: A Molecular Simulation Study of the Structure and Self-Aggregation of Elastin

Nov. 14th

Eden Fussner

Supervisor: David Bazett-Jones

Thesis Title: Visualizing the structural basis of genome silencing

Reagan Ching

Supervisor: David Bazett-Jones

Thesis Title:
Promyelocytic Leukemia Nuclear Bodies: A Meeting Place For Genomic Loci

June 16th

Fiona Cunningham

Supervisor: Charles Deber

Thesis Title:
Identification and analysis of the folding determinants of membrane proteins

Mathew Estey

Supervisor: William Trimble

Thesis Title:
Function and Regulation of Septins During Mammalian Cell Division

Apr. 21st

Negah Fatemi

Supervisor: Bibudhendra Sarkar

Thesis Title:
Structural and Functional Studies of ATP7B, the Copper(I)-Transporting P-type ATPase Implicated in Wilson Disease

Sian Patterson

Supervisor: Reinhart Reithmeier

Thesis Title:
Role of Molecular Chaperones in the Biosynthesis of Anion Exchanger 1

Mar.
31st

Susan Bustos

Supervisor: Reinhart Reithmeier

Thesis Title:
Molecular Characterization of Hereditary Spherocytosis Mutants of the Cytoplasmic Domain of Anion Exchanger 1 and their Interaction with Protein 4.2

M.Sc. Degrees

Dec. 5th

Navaz Karimian Pour

Supervisor: Khosrow Adeli

Thesis Title: Insulin Modulates Intracellular Apolipoprotein B mRNA Traffic into RNA Granules/Cytoplasmic P Bodies: Implications in Translational Control

Yuka Okawa

Supervisor: Reinhart Reithmeier

Thesis Title: Differential Roles of Tryptophan Residues in the Functional Expression of Human Anion Exchanger 1

Sept. 21st

Pei Lin Shi

Supervisor: Cliff Lingwood

Thesis Title: Investigating the Anti-viral Property of Verotoxin and its Receptor Gb3 in Preventing Primary HIV-1 Infection

Michael Puhacz

Supervisor: Walter Kahr

Thesis Title: Identification and Characterization of the Interaction between VPS33B and SNAREs

July 28th

Julia Barette

Supervisor: Julie Forman-Kay, Lewis Kay

Thesis Title:
Cross Validation of the Structure of a Transiently Formed and Low Populated FF Domain Folding Intermediate Determined by Relaxation Dispersion NMR and CS-Rosetta

William Tam

Supervisor: Alan Davidson

Thesis Title:
Characterization of an Iron-Sulfur Binding Protein in the Tail Tip Complex of Bacteriophage Lambda

Apr. 5th

Eric Zholumbetov

Supervisor: William Trimble

Thesis Title:
The Role of Septin 5 in Exocytosis

Neha Kharbanda

Supervisor: Emil Pai

Thesis Title:
Engineering the (S)-3-O-Geranylgeranylglyceryl Phosphate Synthase (GGGPS) Monomer from its Dimer

Mar.
28th

Agata Orlowicz

Supervisor: Craig Smibert

Thesis Title:
Mechanisms of Vts1-Mediated Repression in S. cerevisiae

Yunan Zhong

Supervisor: Daniela Rotin

Thesis Title:
The role of dNedd4 splice isoforms in neuromuscular synaptogenesis in Drosophila melanogaster

2010 Graduates

Ph.D. Degrees

Christopher Madill

Supervisor: Regis Pomes

Thesis Title:
A Heterogeneous, Purpose Built Computer Architecture For Accelerating Biomolecular Simulation

Nov. 4th

Shrivani Sriskanthadeva

Supervisor: Chi-Hung Siu

Thesis Title:
Structural and Functional Characterization of the Soluble Cell Adhesion molecule DdCAD -1 in Dictyostelium discoideum

Rodilia Cardarelli

Supervisor: Alan Davidson

Thesis Title:
A Structural and Evolutionary Analysis of the Bacteriophage Head-tail Connector

Sept. 13th

Marta Davidson

Supervisor: Grant Brown

Thesis Title:
Characterization of the role of Elg1-RFC in Suppression of Genome Instability

Ronnie Lum

Supervisor: John Glover

Thesis Title:
Towards a Mechanistic Understanding of the Molecular Chaperone Hsp104

Aug. 18th

Kelly Stewart

Supervisor: Shana Kelley

Thesis Title:
Design, synthesis, and characterization of a novel class of mitochondrial delivery vectors: mitochondria-penetrating peptides

Leigh Anne Wellhauser

Supervisor: Christine Bear

Thesis Title:
Structural and Functional Regulation of the Human Chloride/Proton Antiporter ClC-5 by ATP and Scaffold NHERF2 Interactions

July 20th

Patrick Kim Chiaw

Supervisor: Christine Bear

Thesis Title:
The Role of the Di-arginine "R553AR555" Motif in Modulating Trafficking and Function of the Major Cystic Fibrosis Causing Mutant (_F508-CFTR)

Karen Siu

Supervisor: Lynne Howell

Thesis Title:
Characterization of the substrate specificity and catalytic mechanism of 5'- methylothioadenosine / S-adenosylhomocysteine nucleosidase

June 29th

Jean-Philippe Julien

Supervisor: Emil Pai

Thesis Title:
Structural Characterization of the anti-HIV-1 Broadly Neutralizing Monoclonal Antibody 2F5

David Mason

Supervisor: Sergio Grinstein

Thesis Title:
Host-Pathogen Interactions: Roles for the Modulation of Lipids and Actin

Mar. 31st

Martin Kurlyowicz

Supervisor: Regis Pomes

Thesis Title:
Principal Component Analysis of Gramicidin

Diana Trebec-Reynolds

Supervisor: Morris Manolson

Thesis Title:
Elucidating Differences in Osteoclast Activation Mechanisms: Looking for Targets to Prevent Pathological Bone Resorption

M.Sc. Degrees

Sept. 29th

Marta Wierzbicka

Supervisor: Emil Pai

Thesis Title:
Investigation of a Putative Secondary Binding Site between the Broadly Neutralizing Monoclonal anit-HIV-1 Antibody and its Antigen gp41

Elizaveta Vasilyeva

Supervisor: Shana Kelley

Thesis Title:
Detection of the BCR-ABL Gene Fusion Using Chip-based Assay

Sept. 24th

Yongqiang (Ken) Jian

Supervisor: Liliana Attisano

Thesis Title:
The BMPRII tail domain regulates the timing of BMP7 signalling

Margaret Bejide

Supervisor: William Trimble

Thesis Title: Characterization of a Novel Interaction Between Septins and the Adenomatous Polyposis Coli Tumor Suppressor

Amardeep Rana

Supervisor: David Isenman

Thesis Title:
Assessment of the functional role of the NTR domain of complement component C3 using a homologous domain exchange approach

July 20th

Yaqi Hu

Supervisor: Gil Privé

Thesis Title:
Characterization of the Interactone of BTB Domains

Andrew Larsen

Supervisor: David Bazett-Jones

Thesis Title:
Characterizing the Organization within Alternative Lengthening of Telomere Associatedpromyelocytic Leukemia Nuclear Bodies

June 7th

Peter Poliszczuk

Supervisor: Liliana Attisano

Thesis Title:
The Search for Novel Wnt Pathway Modulators

Catherine Cheng

Supervisor: William Trimble

Thesis Title:
Regulation of Cell Polarity by Septin 7

Mar. 24th

Evelyn (Ning Man) Cheung

Supervisor: Christopher Yip

Thesis Title:
Synthesis & Application of Polymer Stabilized Lanthanide Fluoride Nanoparticles

Yoav Farkash

Supervisor: Sergio Grinstein

Thesis Title:
Characterization of the Mobility of FcyRlla in Primary Human Macrophages

2009 Graduates

Ph.D. Degrees

Monika Podkowa

Supervisor: Liliana Attisano

Thesis Title:
Characterization of BMP Signalling Pathways mediated by the BMP type II receptor, BMPRII, regulating Neuronal Morphogenesis

Nov. 11th

Carrie-Lynn Keiski

Supervisor: Lynne Howell, Lori Burrows

Thesis Title:
Structural and functional studies of AlgK: a protein required for the secretion of high-molecular weight alginate in Pseudomonas aeruginosa

Lisa Pell

Supervisor: Alan Davidson, Lynne Howell

Thesis Title:
The Structure, Evolution, and Assembly Mechanism of the Bacteriophage Tail Tube

Oct. 23rd

Joseph Marsh

Supervisor: Julie Forman-Kay

Thesis Title:
Structural characterization of disordered states of proteins

Kristin Horton

Supervisor: Shana Kelley

Thesis Title:
Development of Synthetic Peptide Sequences for Mitochondrial Delivery and Disruption

Aug. 24th

Kassidy Kwon Huynh

Supervisor: Sergio Grinstein

Thesis Title:
Phagosome Maturation: Getting Old with pH, Lysosome-Associated Membrane Proteins, and Cholesterol, While Staying Young with Burkholderia Cenocepacia

Laura Rendl

Supervisor: Craig Smibert

Thesis Title:
Regulation of mRNA Decay in S. cerevisiae by the Sequence-Specific RNA Binding Protein Vts1

May 29th

Yinan Zhang

Supervisor: David Williams

Thesis Title:
Functional analysis of the thiol oxidoreductase ERp57 and its role in the biogenesis of MHC class I molecules

Chunzhong (Trent) Yang

Supervisor: John Glover

Thesis Title:
Characterization of the tmRNA tagging system in Streptomyces coelicolor

M.Sc. Degrees

Dec. 14th

Jennifer Webb

Supervisor: Khosrow Adeli

Thesis Title:
Critical Factors Involved in Intestinal Chylomicron Assembly

Nawaz Pirani

Supervisor: John Rubinstein

Thesis Title:

Oct. 26th

Qasim Muhammad Khan

Supervisor: Avi Chakrabartty

Thesis Title:
Misfolding of Particular PrP Species and Susceptibility to Prion Infection

Lema Yousif

Supervisor: Shana Kelley

Thesis Title:
Mitochondria Penetrating Peptides: Characterization and Cargo Delivery

Sept. 24th

Taila Su-Gee Hartley

Supervisor: Allen Volchuk

Thesis Title:
Endoplasmic Reticulum Stress in Pancreatic B- Cells

Ghaleb El Masri

Supervisor: Christopher Yip

Thesis Title:
Single molecule imaging of membrane proteins: A study of the CorA transporter by scanning probe microscopy

July 29th

Monique Rehal

Supervisor: Igor Stagljar

Thesis Title:
Characterizing the Sho1p-interactome in Saccharomyces cerevisiae using the Membrane Yeast Two-Hybrid (MYTH) System

Allison Joy Pang

Supervisor: Reinhart Reithmeier

Thesis Title:
Interaction of Anion Exchanger 1 and Glycophorin A in Human Erythroleukemic K562 Cells

Apr. 21st

Rowan Henry

Supervisor: Regis Pomes

Thesis Title:
Functional Hydration and Conformational Gating in the D-channel of Cyctochrome C Oxidase

Paul Rizk

Supervisor: Julie Forman-Kay

Thesis Title:
NMR Dynamic Studies of Prion Protein Intermediate States to Provide Insight into Conversion

2008 Graduates

Ph.D. Degrees

Eva Amsen

Supervisor: Daniela Rotin

Thesis Title:
Studies of Proteins that Regulate Melanin Synthesis and Distribution

Nov. 28th

Chrissie Mary Bruce (O'Brien)

Supervisor: Daniela Rotin

Thesis Title:
Substrate Specificity and Regulation of Nedd4 proteins

Judith Cirulis

Supervisor: Fred Keeley

Thesis Title:
Self-Assembly and Fibre Formation of Elastin-Like Polypeptides

Oct. 8th

Rishi Rakhit

Supervisor: Avi Chakrabartty

Thesis Title:
Cu, Zn Superoxide Dismutase Misfolding in Amyotrophic Lateral Sclerosis

Sean Reichheld

Supervisor: Alan Davidson

Thesis Title:
The Role of Ligand Induced Stabilization in the Allosteric Mechanism of Tetracycline Repressor

Aug. 27th

Varinder Randhawa
MD/PhD

Supervisor: Amira Klip

Thesis Title:
Constitutive Versus Regulated Traffic of GLUT4

Costin Antonescu

Supervisor: Amira Klip

Thesis Title:
Regulation of GLUT4 intrinsic activity and internalization in myocytes

July 13th

Jonathan Steels

Supervisor: William Trimble

Thesis Title:
Probing Septin Function Through Interaction Screens: Identification of Novel Septins and Possible Regulatory Mechanisms

Lisa Yu

Supervisor: Grant Brown

Thesis Title:
Genetic and Chemical Genetic Analysis of the Cell Cycle

June 26th

Arash Zarrine-Afsar

Supervisor: Alan Davidson

Thesis Title:
The Role of Local Structure Propensity and Non-Native Interactions in Protein Folding

Meryl Roberta Nelson

Supervisor: Craig Smibert

Thesis Title:
Translational regulation in the early Drosophila embryo

June 3rd

Ghadeer Shubassi

Supervisor: Jacqueline Segall

Thesis Title:
Studies of Ndt80, a meiosis-specific transcription factor and a target of the meiotic recombination checkpoint in Saccharomyces cerevisiae

Ken Lau

Supervisor: James Rini,
Jim Dennis

Thesis Title:
A systems biology approach to decoding the function of complex N-glycans

Apr. 10th

Emily Joo

Supervisor: William Trimble

Thesis Title:
On the Functions of Mammalian SEPT2 During Cytokinesis

Wanyi Xiang

Supervisor: Chi-Hung Siu

Thesis Title:
Role of the Cell Adhesion Molecule L1 in Neural Development during Zebrafish Embryogenesis

M.Sc. Degrees

Dec. 1st

Carol Qingniao Wang

Supervisor: Gil Prive

Thesis Title:
BTB domain dimerization: Development of a protein-protein interaction assay

Barry Dion

Supervisor: Grant Brown

Thesis Title:
The Role of Replication Stress in the Maintenance of Genomic Stability

Sept. 24th

Gabriela Meglei

Supervisor: Angus McQuibban

Thesis Title:
Characterization of the mitochondrial fusion protein Mgm1 reveals oligomerization and GTPase activity

Sept. 23rd

Robert Michael Flick

Supervisor: Angus McQuibban

Thesis Title:
Characterization of Drosophila HtrA2/OMI, a Mitochondrial Protein of Pro-Apoptotic Function

Firhan Malik

Supervisor: Christine Bear

Thesis Title:
Fluorescence and Biochemical Studies of the Trafficking Pathways of CFTR

Sept. 9th

Ana Popovic

Supervisor: Alan Davidson

Thesis Title:
Characterization of a Virally Encoded Chaperone Involved in DNA Packaging

Linda Emily Davies

Supervisor: John Glover

Thesis Title:
Determinants of Yeast Prion Stability

Sept. 3rd

Karen Stanger

Supervisor: Alan Davidson

Thesis Title:
Characterizing the role of Nbp2p in the Cell Wall Integrity pathway of Saccharomyces cerevisiae

Stephen Perusini

Supervisor: Liliana Attisano

Thesis Title:
High-Throughput Screen to Identify Small Molecule Inhibitors of the Canonical Wnt Signaling Pathway

Aug. 21st

Garnet Lau

Supervisor: Liliana Attisano

Thesis Title:
Analysis of Naked in the Canonical Wnt Pathway

Abigale Miller

Supervisor: Khosrow Adeli

Thesis Title:
Mechanisms of Diet-induced Dyslipidemia and Insulin Resistance: Role of Chronic LXR Activation

June 16th

Jenny Hsu

Supervisor: Christopher Yip

Thesis Title:
Structure and energetics of peptide-membrane interactions: A molecular dynamics simulation study of the antimicrobial peptide indolicidin with model bilayers

Gary Zhe Wang

Supervisor: Regis Pomes

Thesis Title:
Regulation of Neurosecretion by Tyrosine Phosphorylation of N-ethylmaleimide Sensitive Factor

June 3rd

David Anchel

Supervisor: David Bazett-Jones

Thesis Title:
A Method to Identify DNA Sequences Contained in an Arbitrary Nuclear Region

Wing Yiu (Peter) Chan

Supervisor: Emil Pai

Thesis Title:
Improved Amino Acid Sequence Fingerprints to Identify Proteins with Dehalogenase Activity through Screening of Microbial Genomes

Jan.
22nd

Elida Lai

Supervisor: Allen Volchuk

Thesis Title:
Diabetes and Endoplasmic Reticulum Stress in Pancreatic Beta-Cells: Effects on Insulin Biosynthesis and Beta-Cell Apoptosis

Kaajal Nagar

Supervisor: William Trimble

Thesis Title:
Examining the Role of SNAREs in Mammalian Cytokinesis

Tania Roberts

Supervisor: Grant Brown

Thesis Title:
Characterization of the DNA Damage Resistance Gene RTT107

Nov.
16th

Guillaume Thibault

Supervisor: Walid Houry

Thesis Title:
The role of the N-terminal zinc binding domain of ClpX in cofactor and substrate recognition

May Tsai

Supervisor: Lynne Howell

Thesis Title:
Structural and Functional Studies to Determine the Argininosuccinate Lyase / Fumarase C Superfamily Catalytic Mechanism

Sept.
26th

Shao-Yang Ku

Supervisor: Lynne Howell

Thesis Title:
5-Methylthioribose Kinase: Structure, Function and Drug Design

James Eric Shaw

Supervisor: William Trimble

Thesis Title:
Studies of Protein-Protein Interactions at Membrane Interfaces Using Correlated Atomic Force and Fluorescence Microscopy

Jamie Snider

Supervisor: Walid Houry

Thesis Title:
Characterization of the MoxR Family of AAA+ ATPases

Johnny Tkach

Supervisor: John Glover

Thesis Title:
Analysis of Hsp104-Mediated Protein Folding In Vitro and In Vivo.

Tomas Rodinger

Supervisor: Régis Pomès

Thesis Title:
Efficient Free Energy Simulations for Structure Based Drug Design

Rachel Johnson

Supervisor: Charles Deber

Thesis Title:
Determinants of Membrane Protein Folding

Christopher Tsang

Supervisor: William Trimble

Thesis Title:
Septin GTPases in the Central Nervous System: an Investigation into Axon Specification, Formation and Function.

Nov.
2nd

Sophia Chan

Supervisor: Jaro Sodek & Bernhard Ganss

Thesis Title:
Overexpression of the transcription factor Zfp60 in a multipotential mesenchymal cell line and its effects on gene expression and cell differentiation potential

Diana Wong

Supervisor: Khosrow Adeli

Thesis Title:
Proteomic Profiling of PCTVs involved in Assembly and Secretion of Apd848 containing Chylomicrons by the Intestine

May
31st

Dana Patterson

Supervisor: William Trimble

Thesis Title:
Study of the Relationship between Parkin and Septin5 in Neurons

Roni Gordon

Supervisor: James Rini

Thesis Title:
Structural Insights into Rabbit N-acetylglucosaminyltransferase I Donor Specificity, Acceptor Binding & Catalysis

Lellean Jebailey

Supervisor: Amira Klip

Thesis Title:
The role of Rho GTPases in Insulin-induced Actin Remodeling and GLUT4 Mobilization in L6 muscle cells

Jianfei Qi

Supervisor: Chi Hung Siu

Thesis Title:
Role of N-cadherin and beta-catenin signaling during transendothelial migration of melanoma cells

May
4th

Karen Rothfels

Supervisor: Jacqueline Segall

Thesis Title:
Cys2-His2 zinc-finger transcription factors in the regulation of expression of the 5S RNA and DIT genes in Saccharomyces cerevisiae

Ahlia Khan

Supervisor: Peter Lewis

Thesis Title:
Enzymatic Properties of Sir2 Proteins

Dec.
19th

Hsin Hen Kuo

Supervisor: Charles Deber

Thesis Title:
Alginate in the Pseudomonas aeruginosa Biofilm Matrix: Barrier to Cationic Antimicrobial Peptides

Hyejin Lee

Supervisor: Jaro Sodek

Thesis Title:
Critical Role of Membrane-Type 1 Matrix Metalloproteinase in Collagen Phagocytosis by Fibroblasts

Dec.
5th

Gerald Quon

Supervisor: Shoshana Wodak

Thesis Title:
The Landscape of False-Positive Transcription Factor Binding Sites in Yeast

Gong Chen

Supervisor: Chales Deber

Thesis Title:
Interhelical interactions of transmembrane segments 9 and 10 in the cystic fibrosis transmembrane conductance regulator

Oct.
4th

Gregory Block

Supervisor: David Bazett-Jones

Thesis Title:
Transcriptional Potential of the Promyelocytic Leukemia Nuclear Body Transcriptional Potential of the Promyelocytic Leukemia Nuclear Body

Roberta Siu

Supervisor: Daniela Rotin

Thesis Title:
Regulation of Axon Growth by PTPsigma and its Substrates N-cadherin and beta-catenin

May
15th

Martin Chung

Supervisor: Fred Keeley

Thesis Title:
Phylogenetic Analysis of Tropoelastin Structure and Sequence in Vertebrates

Winnie Luong

Supervisors: Christine Bear & Lynne Howell

Thesis Title:
Biochemical Studies of the Regulation of the Gating of C1C-2

Jan.
16th

Eden Fussner

Supervisor: Gil Privé

Thesis Title:
Heterodimerization and Oligomerization of the BTB domain

Wing Lau

Supervisor: Emil Pai

Thesis Title:
Translocation of neisserial a-proteins into mammalian cells

2005 Graduates

Ph.D. Degrees

Sept.
13th

Michael Chang

Supervisor: Grant Brown

Thesis Title:
Identification of Novel DNA Damage Response Genes Using Functional Genomics

Joanne Cheung

Supervisor: Reinhart Reithmeier

Thesis Title:
Topology and Biosynthesis of the Anion Exchanger 1 Mutant of Southeast Asian Ovalocytosis

July
15th

Cameron Scott

Supervisor: Sergio Grinstein

Thesis Title:
Control of Phagocytosis and Phagosome Maturation by Phosphoinositides

Jeffrey Lee

Supervisor: Lynne Howell

Thesis Title:
Structural and Functional Studies of 5'-Methyladenosine / S-Aadenosylhomocysteine Nucleosidase

Mar.
28th

Doron Betel

Supervisor: Christopher Hogue

Thesis Title:
A Computational Study of the Role of Conserved Domains in Protein Interactions

Peter Hwang

Supervisor: Lewis Kay

Thesis Title:
Solution NMR Spectroscopy of Integral Membrane Proteins

M.Sc. Degrees

Kathy Nethery-Brokx

Supervisor: Daniela Rotin

Thesis Title:
Subcellular Localization of Human Nedd4-2 Splice Isoforms

Damanpreet Bawa

Supervisor: James Gurd

Thesis Title:
Effects of transient global ischemia on distribution and phosphorylation of the ±-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptors at the synapse

Paul Paroutis

Supervisor: Sergio Grinstein

Thesis Title:
Quantitative and Dynamic Assessment of the Endoplasmic Reticulum to Phagosome Formation

Chandrasagar Dugani

Supervisor: Amira Klip

Thesis Title:
Morphological Characterization of Perinuclear GLUT4 Distribution in L6 Myoblasts

Jan.
24th

Quang Nguyen

Supervisor: Peter Lewis

Thesis Title:
Structural and Functional Characterization of Yeast Histone Deacetylase Hos3

Ruth Isserlin

Supervisor: Christopher Hogue

Thesis Title:
Developing a Confidence Measure for Protein-Protein Interactions in SaccharomycesCerevisiae

Jan.
20th

Bhooma
Thiruvahindrapuram

Supervisor: Boris Steipe

Thesis Title:
SCHEMATIKON, An Encyclopedia of Structural Motifs in Proteins

Sten Thomson

Supervisor: David Williams

Thesis Title:
Delineation of the Lectin Site of the Molecular Chaperone Calreticulin