featured publications

Effective population size in simple infectious disease models

Yerlanov, M., Agarwal, P.; Colijn, C*.; Stockdale, J.
*Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada

Journal of Mathematical Biology Volume 87, Issue 6 December 2023 Article number 80
DOI: 10.1007/s00285-023-02016-1

Phylogenetic identification of influenza virus candidates for seasonal vaccines

Hayati, M; Sobkowiak, B; Stockdale, J.; Colijn, C*
*Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada

Science advances Open Access Volume 9, Issue 44, Pages eabp91853 November 2023
DOI: 10.1126/sciadv.abp9185

Mechanism of secretion of TcpF by the Vibrio cholerae toxin-coregulated pilus

Craig, Lisa*; Nguyen, Ming; Wu,Tzu-Hui and Danielson, Katie
*Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada

PNAS, Volume 120 (16)
DOI: 10.1073/pnas.2212664120

Leveraging prices from credit and equity option markets for portfolio risk management

Bégin, Jean-François*; Boudreault, Mathieu; Thériault, Mathieu
*Department of Statistics and Actuarial Science, Simon Fraser University, Burnaby, BC, Canada

Journal of Futures Markets Open Access 2023
DOI: 10.1002/fut.22465

A Perspective on High-Intensity Interval Training for Performance and Health

Coates, Alexandra M.; Joyner, Michael J.; Little, Jonathan P.; Jones, Andrew M.; Gibala, Martin J.
*Department of Biomedical Physiology & Kinesiology, Simon Fraser University, Burnaby, BC, Canada

Sports Medicine Open Access 2023
DOI: 10.1007/s40279-023-01938-6

Ferroelastic Domains and Effects of Spontaneous Strain in Lead Halide Perovskite CsPbBr3

Bari, Maryam, Bokov, Alexei A., Leach, Gary W., Ye, Zuo-Guana
Department of Chemistry and 4D LABS, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Chemistry of Materials Volume 35, Issue 17, Pages 6659 - 6670 - 12 September 2023
DOI: 10.1021/acs.chemmater.3c00579

A Fixable Fluorescence-Quenched Substrate for Quantitation of Lysosomal Glucocerebrosidase Activity in Both Live and Fixed Cells

Zhu, Sha(a); Deen, Matthew C.(a); Zhu, Yanping(b); Gilormini, Pierre-André(a); Chen, Xi(a); Davis, Oliver B.; Chin, Marcus Y.; Henry, Anastasia G.; Vocadlo, David J (a,b)
a Department of Chemistry, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada
b Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Angewandte Chemie - International Edition Open Access Volume 62, Issue 402 October 2023 Article number e202309306
DOI: 10.1002/anie.202309306

MultiplexMS: A Mass Spectrometry-Based Multiplexing Strategy for Ultra-High-Throughput Analysis of Complex Mixtures

Recchia, Michael J. J.; Baumeister, Tim U. H.; Liu, Dennis Y.; Linington, Roger G.
Department of Chemistry, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Analytical Chemistry Volume 95, Issue 32, Pages 11908 - 11917 - 15 August 2023
DOI: 10.1021/acs.analchem.3c00939

Opportunities of Ionomer Development for Anion-Exchange Membrane Water Electrolysis

Mardle, Peter, Chen, Binyu*, Holdcroft, Steven*
*Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, V5A 1S6, BC, Canada

ACS Energy Letters Volume 8, Issue 8, Pages 3330 - 3342 - 11 August 2023
DOI: 10.1021/acsenergylett.3c01040

Information Engine in a Nonequilibrium Bath

Saha, Tushar K.*; Ehrich, Jannika; Gavrilov, Momčilo*; Still, Susanne; Sivak, David*; Bechhoefer, John*
*Department of Physics, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Physical Review Letters Open Access Volume 131, Issue 5 - 4 August 2023 Article number 057101
DOI: 10.1103/PhysRevLett.131.057101

Genomic epidemiology offers high resolution estimates of serial intervals for COVID-19

Stockdale, Jessica E.*; Susvitasari, Kurnia*; Tupper, Paul*; Sobkowiak, Benjamin*; Mulberry, Nicola*; Gonçalves da Silva, Anders; Watt, Anne; Sherry, Norelle L.; Minko, Corinna; Howden, Benjamin P.; Lane, Courtney R; Colijn, Caroline*
*Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada

Nature Communications Open Access Volume 14, Issue 1 - December 2023 Article number 4830
DOI: 10.1038/s41467-023-40544-y

Functional Nonlinear Learning

Wang, Haixu; Cao, Jiguo*
*Department of Statistics & Actuarial Science, Simon Fraser University, Burnaby, Canada

Journal of Computational and Graphical Statistics Open Access 2023
DOI: 10.1080/10618600.2023.2233581

Incomplete double-cone factorizations of centrosymmetric matrices arising in spectral methods

Greif, Chenn; Nataj, Sarah*, Trummer, Manfred*
*Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada

Numerical Algorithms 2023
DOI: 10.1007/s11075-023-01612-y

Inferring Subsystem Efficiencies in Bipartite Molecular Machines

Leighton, Matthew & Sivak, David*
*Department of Physics, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Physical Review Letters, Open Access Volume 130, Issue 17 - 28 April 2023 Article number 178401
DOI: 10.1103/physrevlett.130.178401

Memory and Transduction Prospects for Silicon T Center Devices

Higginbottom, Daniel*; Asadi, Faezeh Kimiaee; Chartrand, Camillea; Ji, Jia-Wei; Bergeron, Laurenta; Thewalt, Michael; Simon, Christoph; Simmons, Stephanie
*Department of Physics, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

PRX Quantum, Open Access Volume 4, Issue 2, April 2023, Article number 020308
DOI: 10.1103/PRXQuantum.4.020308

Groups of symplectic involutions on symplectic varieties of Kummer type and their fixed loci

Frei, Sarah; Honigs, Katrina*
*Simon Fraser University, 8888 University Drive, Burnaby, V5A 1S6, BC, Canada

Forum of Mathematics, Sigma Open Access Volume 11 - 23 May 2023, Article number e40
DOI: 10.1017/fms.2023.37

A three-phase matheuristic algorithm for the multi-day task assignment problem

Wang, Yang; Liu, Haichao; Peng, Bob; Wang, Haibo; Punnen, Abraham P.*
*Department of Mathematics, Simon Fraser University, 250-13450 102nd AV, Surrey, V3T 0A3, BC, Canada

Computers and Operations Research Volume 1 - 5 November 2023, Article number 106313
DOI: 10.1016/j.cor.2023.106313

Electrochemical and Solvent-Driven Swelling in a Conducting Polymer Film

Kaake, Loren G* ; Gompf, Bruno; Ludwigs, Sabine
*Department of Chemistry, Simon Fraser University, 8888 University Dr., Burnaby, V5A 1S6, BC, Canada

Chemistry of Materials Volume 35, Issue 11, Pages 4532 - 4540 - 13 June 2023
DOI: 10.1021/acs.chemmater.3c00849

Modified Einstein versus modified Euler for dark matter

Bonvin, Camille; Pogosian, Levon*
*Department of Physics, Simon Fraser University, Burnaby, BC, Canada

Nature Astronomy Open Access 2023
DOI: 10.1038/s41550-023-02003-y

Impact of conditioning protocol on hydrocarbon-based solid polymer electrolyte fuel cells 

Balogun, E., Holdcroft, S.
Department of Chemistry, Simon Fraser University, 8888 University Drive, Burnaby, BC, V5A 1S6, Canada

Journal of Power Sources, 570, art. no. 233008. 2023
DOI: https://doi.org/10.1016/j.jpowsour.2023.233008

An α-chloroaldehyde-based formal synthesis of eribulin 

Kaghad, A., Panagopoulos, D., Caballero-García, G., Zhai, H., Britton, R¹.

¹Department of Chemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada.

Nature communications, 14(1), p. 1904. 2023
https://doi.org/10.1038/s41467-023-37346-7

Bayesian adaptive model selection design for optimal biological dose finding in phase I/II clinical trials 

Lin, Ruitao^a., Yin, Guosheng^b., Shi, Haolun^c

^bDepartment of Statistics and Actuarial Science, University of Hong Kong, Pokfulam Road, Hong Kong, China
^cDepartment of Statistics and Actuarial Science, Simon Fraser University, 8888 University Dr, Burnaby, BC V5A 1S6, Canada

Biostatistics (Oxford, England), 24(2), pp. 277-294. April 2023
DOI: 10.1093/biostatistics/kxab028 

Near-field enhancement of optical second harmonic generation in hybrid gold–lithium niobate nanostructures 

Ali, Rana Faryad^a.,Busche, Jacob A.^b., Kamal, Saeid^a., Masiello, David J.^b., Gates, Byron D.^a

^aDepartment of Chemistry and 4D LABS, Simon Fraser University, Burnaby, V5A 1S6, BC, Canada

Light: Science and Applications, 12(1), art. no. 99, April 2023

DOI: 10.1038/s41377-023-01092-8 

Pathogen-associated gene discovery workflows for novel antivirulence therapeutic development 

Lau, W.Y.V., Taylor, P.K., Brinkman, F.S.L., Lee, A.H.Y.

^aDepartment of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada

eBioMedicine, Volume 88, Article no. 104429, February 2023, DOI: 10.1016/j.ebiom.2022.104429

Half a century of rising extinction risk of coral reef sharks and rays 

Sherman, C. Samantha^a, Simpfendorfer, Colin A.^c, ^d; Pacoureau, Nathan^e.,(...), Yuneni, Ranny R.^aj; Dulvy, Nicholas K.^a

^aEarth to Ocean Research Group, Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, V5A 1S6, BC, Canada

Nature Communications, Volume 14, Issue 1, Article no. 15, December 2023, DOI:10.1038/s41467-022-35091-x

Annotation of natural product compound families using molecular networking topology and structural similarity fingerprinting

Morehouse, Nicholas J.^a; Clark, Trevor N.^b; McMann, Emily J.^b; van Santen, Jeffrey A.^b; Haeckl, F. P. Jake^b; Gray, Christopher A.^a, ^c; Linington, Roger G.^b

^aDepartment of Biological Sciences, University of New Brunswick, Saint John, NB, Canada
^bDepartment of Chemistry, Simon Fraser University, Burnaby, BC, Canada
^cDepartment of Chemistry, University of New Brunswick, Fredericton, NB, Canada

Nature Communications, Volume 14, Issue 1, Article no. 308, December 2023, DOI: 10.1038/s41467-022-35734-z

Cost-Sensitive Learning for Medical Insurance Fraud Detection with Temporal Information

Shi, Haoluna^a; Tayebi, Mohammad A^b; Pei, Jianb^b; Cao, Jiguoa^a

^aDepartment of Statistics and Actuarial Science, Simon Fraser University, Burnaby, BC, Canada
^bSchool of Computing Science, Simon Fraser University, Burnaby, BC, Canada

IEEE Transactions on Knowledge and Data Engineering, Pages 1-14, 2023, DOI:10.1109/TKDE.2023.3240431

Equilibria and energy minimizers for an interaction model on the hyperbolic space 

Fetecau, Razvan C.; Park, Hansol

^aDepartment of Mathematics, Simon Fraser University, 8888 University Dr., Burnaby, BC, V5A 1S6, Canada

Physica D: Nonlinear Phenomena, Volume 446, Article. no. 133670, DOI: 10.1016/j.physd.2023.133670

Concerning data inconsistencies in Burkitt lymphoma genome study

Rushton, Christopher K.^a, Dreval, Kostiantyn^a,b; Morin, Ryan D.^a,b,c

^aDepartment of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada
^bGenome Sciences Centre, BC Cancer, Vancouver, BC, Canada
^cLymphoid Cancer Research, BC Cancer, Vancouver, BC, Canada

Blood, 2023, DOI: 10.1182/blood.2022016505

A NEW OPTION FOR MORTALITY-INTEREST RATES

Lin, Tzuling^a; Tsai, Cary Chi-Liang^b

^a Department of Finance, National Chung Cheng University, Minhsiung, Taiwan
^b Department of Statistics and Actuarial Science, Simon Fraser University, Burnaby, BC, Canada

Journal of Futures Markets, Volume 43, Issue 2, Pages 273-293, February 2023, DOI: 10.1002/fut.22390

TROPICAL TANGENTS FOR COMPLETE INTERSECTION CURVES

Ilten, Nathan¹, Len, Yoav²

¹ Department of Mathematics, Simon Fraser University, 8888 University Drive, Burnaby, V5A1S6, BC, Canada
2 Mathematical Institute, University of St Andrews, St Andrews, KY16 9SS, United Kingdom

Mathematics of Computation, Volume 92, Issue 340, Pages 931-979 March 2023, DOI: 10.1090/mcom/3782

CLIC-01: MANUFACTURE AND DISTRIBUTION OF NON-CRYOPRESERVED CAR-T CELLS FOR PATIENTS WITH CD19 POSITIVE HEMATOLOGIC MALIGNANCIES

Kekere, Natasha^1,2 ... Holt, Robert A.^3,4,5

¹ Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, ON, Canada
² Division of Hematology, Department of Medicine, The Ottawa Hospital, Ottawa, ON, Canada
³ Canada’s Michael Smith Genome Sciences Centre, British Columbia Cancer Research Institute, Vancouver, BC, Canada
⁴ Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC, Canada
⁵ Department of Molecular Biology & Biochemistry, Simon Fraser University, Burnaby, BC, Canada

Frontiers in Immunology, Volume 13, 19 December 2022, DOI: 10.3389/fimmu.2022.1074740

ANCESTRAL RECONSTRUCTION REVEALS CATALYTIC INACTIVATION OF ACTIVATION-INDUCED CYTIDINE DEAMINASE CONCOMITANT WITH COLD WATER ADAPTATION IN THE GADIFORMES BONY FISH

Atefeh Ghorbani^1,2, S. Javad Khataeipour³, Monica H. Solbakken⁴, David N. G. Huebert^1,2, Minasadat Khoddami¹, Khalil Eslamloo⁵, Cassandra Collins¹, Tiago Hori⁵, Sissel Jentoft⁴, Matthew L. Rise⁵ and Mani Larijani^1,2

¹ Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, Canada, ² Program in Immunology and Infectious Diseases, Division of Biomedical Sciences, Faculty of Medicine, Memorial University of Newfoundland, St. John’s, Canada, ³ Department of Computer Science, Faculty of Science, Memorial University of Newfoundland, St. John’s, Canada, ⁴ Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, Oslo, Norway, ⁵ Department of Ocean Sciences, Memorial University of Newfoundland, St. John’s, Canada

BMC Biology, Volume 20, Issue 1, December 2022, DOI: 10.1186/s12915-022-01489-8