Centre for Mathematical Biology
Annual Report, July 1, 2012 – June 30, 2013
I.
Overview
The Centre for Mathematical Biology has provided an excellent environment for attracting, developing
and retaining outstanding researchers.
The purpose of the Centre for Mathematical Biology is to provide a campus-wide resource for
interdisciplinary and multidisciplinary research and training in mathematical biology. The Centre bridges
the gap between life scientists and mathematicians in solving problems of significance to Canadians. Its
activities fall into three categories: (i) facilitation of multidisciplinary connections between life scientists
and mathematicians, and between academics and government/industry; (ii) training of a new generation of
researchers; and (iii) development of interdisciplinary mathematical biology, locally, nationally and
internationally.
During 2012-2013, the Centre was home to 5 undergraduates, 20 graduate students, 7 postdoctoral
fellows, 2 research associates, 4 core faculty members and many affiliated faculty.
Again, constructive collaborations flourished with federal and provincial governments, Mathematics in
Information Technology and Complex Systems (MITACS), NSERC networks, NGOs, industry, academic
researchers within campus, and academic researchers worldwide.
The Centre was active in hosting 17 seminar speakers and 7 short-term visitors.
II. Scientific Activities & Infrastructure
There were 4 core investigators for the Centre, (Lewis, de Vries, Hillen, and Wang). (Also see Appendix
A). Scientific activities at the Centre are defined as the activities of these core investigators.
(a)
Current Major Multidisciplinary Research Collaborations
Projects with no Centre publications are typically in their first few years, with papers currently in the
submission/review stage but the research is on-going. For simplicity of presentation, only the projects that
have associated publications are shown.
Project
Senior Researchers
Dept
Animal
Movement
Modelling
3
Campus
2
Centre
Trainees¹
Centre
Publications
Funding Agencies
2, 4, 6, 10, 12,
20, 26, 30, 37,
38
NSERC Discovery &
Accelerator, Alberta
Innovates—
Technology Futures,
NSERC CGS, Banting
OffCampus
4
3
1
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Biological
Invasions
2
1
Cell Movement
1
Evolution of
Cell Size and
Body Size
1
F1000
1
Infectious
Disease
Modelling
2
1
Instream Flow
Needs: A
Mechanistic
Model-based
Approach
1
1
Microbiology
1
Mountain Pine
Beetle
Modelling
2
Other
Models for
Population
Cycles
6
3
1
7, 8, 9, 27, 28
NSERC Discovery and
Accelerator ,
University of Alberta,
Department of
Biological Sciences,
the Canadian Aquatic
Invasive Species
Network (CAISN)
14, 15
NSERC Discovery
1
13
NSERC Discovery
1
43
N/A
4
5
24, 25
7
1
32, 33
7
2
31
NSERC Discovery
2
1
11
NSERC Discovery,
Alberta Innovates Bio
Solutions, Genome
Alberta
3
4
2
5, 18, 36, 39,
40, 41, 42
1
2
NSERC Discovery &
Accelerator, Oxford
Centre for
Collaborative and
Applied Mathematics
NSERC Discovery
4
3,
Alberta Prion
Research
Institute, Alberta
Innovation, NSERC
Discovery &
Accelerator Oxford
Centre for
Collaborative and
Applied Mathematics
NSERC Discovery,
Alberta Water
Research Institute
2
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Risk
Assessment of
Oil Sands
2
1
1
16
Mathematical
Models of
Cancer and
Cancer Therapy
2
3
2
1, 21, 34, 35
NSERC Discovery
Sea Lice in
Salmon
2
7
1
17, 22, 23, 29
NSERC Discovery,
Accelerator & Vanier,
MITACS, Alberta
Innovates, Pacific
Institute for
Mathematical Sciences
(PIMS)
Theory of Delay
Differential
Equations
2
2
1
19
Totals²
26
45
24
43
8
Alberta Environment,
MITACS, NSERC
Discovery &
Accelerator
NSERC Discovery
¹ Many of the projects involve additional trainees not at the Centre but these are not added here
²The units here are person times projects. In other words, individuals participating in more than one
project are counted for each project they participate in.
(b) Educational Projects and Initiatives
PIMS International Graduate Training Centre (IGTC): This program continued to flourish under the
auspices of the Pacific Institute for Math Sciences.
The ITGC in Mathematical Biology Annual Summit, held in Naramata, BC was attended by de Vries and
Hillen. This year's annual summit celebrated graduate students and their research in mathematical biology
at PIMS universities through three main scientific events:
 research talk and graduate-level workshop in interacting particle systems by Dr. Stephen M Krone,
Mathematics Professor, University of Idaho
 research talks and posters by graduate students in mathematical biology
 professional development workshop by Thomas Hillen and Gerda de Vries: What do I do next? How
to come up with new research project ideas
Immediately preceding the workshop there was a symposium in mathematical biology at the UBC
Okanagan campus, featuring research talks by faculty.
Mathematical Biology Journal Club: Hillen and de Vries hosted a weekly seminar meeting at the Centre,
to discuss CMB student’s work in progress, to meet with visitors and to read pertinent journal papers.
3
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Dr. Hillen was supervisor to 5 graduate students and 3 undergraduate students while Dr. de Vries was
supervisor to 3 graduate students, 2 undergraduate students and a visiting student from Universidad
Simón Bolívar.
Wang Research Group:
Wang Research Group consists of 6 graduate students and 2 postdoctoral fellows. Besides weekly
individual meetings, they held regular group meetings to discuss several areas of mathematical biology as
diverse as modeling stoichiometry-based ecological interactions, microbiology, infectious diseases,
habitat destruction and biodiversity, risk assessment of oil sands pollution. Dr. Wang, his students and
postdocs also had joint activities with other groups in the Centre.
Lewis Research Group:
The Lewis Research Group consists of 6 graduate students, 6 postdoctoral fellows and 2 research
associates. Dr. Lewis and his lab members held weekly lab meetings to discuss their research and to touch
base on Centre activities. Visitors to the Centre were invited to participate in lab meetings held during the
time of their visit.
Graduate Summer Course on Mathematics Behind Biological Invasions
The course ran in the summer of 2013 and taught a group of international graduate students. Hillen and
Lewis co-developed this course and Lewis was one of four principal lecturers. The theme was
mathematical theory, techniques and insight applied to the process of biological invasions. This course
was connected to Lewis’ Killam Research Fellowship (2012-14) of the same name. One outcome of the
course was a new book, coauthored with the other lecturers.
.
(b)
Personnel
Faculty:
There were four core faculty members for the 2012/2013 year. They were: Gerda de Vries, Thomas
Hillen, Mark Lewis and Hao Wang.
Support Staff:
Mark Duller remained the Centre’s part-time Computer Analyst and Kimberley Wilke-Budinski provided
part-time administrative support.
Graduate Students, Funding and Awards:

Amanda Swan: MSc – continuing - (NSERC Alexander Graham Bell Canada Graduate Scholarship)

Chaochao Jin:MSc – continuing - Mathematical inverse problem of infectious disease transmission

Cody Nitschke – withdrew

Cole Zmurchok: MSc – continuing - (Queen Elizabeth II Graduate Scholarship)
4
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013

Maryam Khajen Alijani: MSc – completed - Stochasticity in modelling biological systems

Michael Bryniarski: MSc– continuing - Mathematical Ecology - (PIMS International Graduate
Training Centre for Mathematical Biology, JM Mitchell recruitment scholarship)

Nicholas Piazza: MSc – continuing - Infectious disease modelling with seasonal incidence,
vaccination and multi-cell spatial spread

Theresa Stocks: MSc - completed

Wafa Veljee: MSc – continuing

Xihui Lin: MSc – completed

Andria Dawson: PhD – completed - Models for mixed wood forests - (Queen Elizabeth II Graduate
Scholarship)

Carlos Contreras: PhD – visiting student

Diana White: PhD – continuing - Mathematical modelling of microtubule dynamics in human
columnar epithelial cells

Harshana Rajankaruna: PhD – continuing - Population viability models for invasive aquatic species

Jonathan Martin: PhD – completed - Forest fire research

Jude Kong: PhD – continuing

Marie Auger-Methe: PhD – continuing - State –space models and the analysis movement by Arctic
mammals - (Andrew Stewart Memorial Prize, Alberta Innovates-Health Solutions, Honorary Izaak
Walton Killam Memorial Scholarship and the Steve and Elaine Antoniuk Graduate Scholarship)

Silogini Thanarajah: PhD – completed - Mathematical models for ecological dynamics - (PIMS
IGTC Fellowship in Math Biology)

Stephanie Peacock: PhD – continuing - Modelling disease transmission from aquaculture to wild
salmon – (Vanier Canada Graduate Scholarships, Alberta Innovates Graduate Student Scholarship,
D. Alan Birdsall Memorial Scholarship, PIMS IGTC Fellowship in Math Biology (honorary))

Ulrike Schlaegel: PhD – continuing - Modelling wolf movement and researching state-side models
(Alberta Innovates – Technology Futures iCORE Graduate Recruitment Scholarship)
5
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Postdoctoral Researchers, Funding and Awards:

Aditya Raghavan: PDF – continuing - Tree distribution and dynamics under variable environmental
conditions

Devin Goodsman; PDF – continuing - Mountain Pine Beetle dispersal Models – (Genome Alberta,
Alberta Innovates Bio Solutions)

Greg Breed: PDF – continuing - Models for Animal Movement - (Banting Postdoctoral Fellowship)

Jimmy Garnier: PDF – completed - Effect of Climate change on genetic diversity – (NSERC
Accelerator, French Department of Education and Research, France)

Jonathan Potts: PDF – continuing - Animal movement models & models for territoriality – NSERC
Accelerator, Killam)

Olga Vasilyeva: PDF – completed - Analysis of River Dynamics – (Alberta Water Research
Institute)

Qihua Huang: PDF – continuing - Risk assessment of oil sands pollution on fish - (Alberta
Environment Internship, MITACS, CAISN, Alberta Water Research Institute)
Research Associates/Assistants:


Alex Potapov: Research Associate – continuing - Integrated systems for invasive species – (CAISN,
Alberta Innovates Bio Solutions, Alberta Water Research Institute)
Mario Pineda-Krch: Research Associate – completed - Collaborative research on genomics MPB –
(Genome Alberta, Alberta Innovates Bio Solutions)
Undergraduate Students





(e)
Andreas Buttenschoen: BSc – continuing (NSERC Undergraduate Student Research Award)
Jeff Bachman: BSc - completed (NSERC Undergraduate Student Research Award)
Paul Fritsch: BSc - completed
Jeff Zielinski: BSc – completed
Cole Zmurchok: BSc – completed
Visitor/Seminar Program
The Centre held the PIMS Mathematical Biology Seminar Series each Monday of the Fall and Winter
terms. Names of the speakers are listed below and include speakers from Alberta, across Canada, the US,
Europe and the Middle East.
6
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Visiting Students



Karl Mokross (Louisiana State University) - June 30 – July 18, 2012
Carlos Contreras, (Universidad Simón Bolívar, Departamento de Computo Científico y Estadística)
August 2012 – December 2012
Guillaume Bastille-Rousseau (Trent University) – November 12 – December 7, 2012
Short Term Visitors







Dr. Frederic Hamelin (France) July 1 – July 22, 2012
Dr. Péter K. Molnár, (USA) October 1- October 5, 2012
Dr. Jeff Musgrave (Ottawa) October 14 – October 16, 2012
Dr. Zoi Rapti – (USA) February 24 – February 27, 2013
Dr. Mishtu Banerjee, (Calgary) April 7 – April 9, 2013
Dr. Sergey Petrovskiy (UK) May 25 – June 14, 2013
Dr. Alan Hastings (USA) May 26 – June 14, 2013
Visiting Speakers from Universities other than the University of Alberta

Dr. Péter K. Molnár, Princeton University
Metabolic Approaches to Predicting Climate Change Impacts on Seasonal Host-Macroparasite
Systems

Carlos Contreras, Universidad Simón Bolívar, Departamento de Computo Científico y Estadística
Understanding the binding mechanism of histone H1 using model comparison criteria and FRAP
experiments
Jeff Musgrave – University of Ottawa
How dispersal in patchy landscapes affects persistence and spread


Olga Vasilyeva – University of Ottawa/University of Alberta
Persistence and competition in advective environments

Zoi Rapti – University of Illinois at Urbana-Champagne
Daphnia epidemics and the role of food resources, competitors and predators

Mishtu Banerjee, PhD, Statistical Modelling Analyst Tesera Systems Inc., Calgary
One model to rule them all? A brief history of the diversity stability debate
Seminar Speakers from the University of Alberta

Thomas Hillen
Mathematical modelling with fully anisotropic diffusion

Violeta Kovacev-Nikolic
Persistent homology in analysis of point-cloud data
7
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013

Jimmy Garnier
The impact of long distance dispersal and Allee effect on the dynamics of range-expanding
populations

Stephanie Peacock
Models to management: sea lice transmission from farm to wild salmon

Greg Breed
Analyzing citizen science data to detect community-wide climate driven population changes in
Eastern North American butterflies

Jonathan Potts
Territory formation from an individual-based movement-and-interaction model

Qihua Huang
Mathematical risk assessment of contaminents on fish population dymanics

Thomas Hillen/Jeff Zielinski
Merging-emerging systems can describe spatio-temporal patterning in a chemotaxis model

Travis Craddock
A role for homeostatic drive in the perpetuation of complex chronic illness

Silogini Thanarajah
Modelling bacterial competition and bacteriophage in a petri dish

Ulrike Schlaegel
Cognitive maps in animal movement models and consistency of movement models

Aditya Raghavan
Testing the “strict homeostasis” assumption in stoichiometric producer-grazer models via homoclinic
bifurcations

Vakhtang Putkaradze
Graduate recruiting seminar: Geometry everywhere: sensors, renewable energy and high tech devices
8
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
III.
Business Plan Implementation
(a)
Space
The Centre occupies Central Academic Building (CAB) rooms 545A (visitor), 545B (director), 545C
(research), 545 (computing), 549 (library/meeting room) and 551 (postdoc/research associate/computer
support personnel).
(b)
Governance
Director: Mark Lewis (Math/Stat Sciences and Biological Sciences)
Advisory Board Members: Gerda deVries (Math/Stat Sciences) Russ Greiner (Computing Science), Hao
Wang (Math/Stat Sciences), Subhash Lele (Math/Stat Sciences), Jack Tuszynski (Cross Cancer Institute)
(c)
Financial Summary July 1, 2012 to June 30, 2013
Starting Balance as of July 1, 2012 - $17,944.40
Balance Forward as of June 31, 2013 - $8,377.56
INCOME
Anticipated
Revenue
Total
Revenue
Math/Stat Sci
$0
$0
Admin Staff
$5,249.20
Science Faculty
$0
$0
Speakers/Hosting
$1,757.25
VP Research
$0
$0
Supplies
$2,560.39
TOTALS
$0
$0
Source
Source
TOTALS
Expenditures
$9,566.84
9
Centre for Mathematical Biology (CMB)
(d)
July1, 2012 to June 30, 2013
Evaluation of the CMB According to Established Metrics
1) Multidisciplinary Research Projects
Number of multidisciplinary
researchers
Involved in projects (in
Dept., Campus,
And Other)
06-07
07-08
08-09
09-10
10-11
11-12
12-13
Faculty from Math & Stat
Sciences, UA
Faculty from other depts.,
UA
Faculty from other
institutions
Centre trainees (grad
students, research
associates & postdocs)
Total #’s involved in
multidisciplinary
research
18
22
30
39
40
31
26
10
13
12
16
17
14
9
41
81
78
63
86
65
46
34 (20)
38 (19)
24¹
37¹
35¹
31¹
24¹
103
154
144
155
178
141
105
23
23
7
34
41
7
39
46
3
24
27
0
30
30
3
19
22
2²
18
20
$926,187
$821,718
$759,072
$678,123
$610,136 $411,500 $454,525
Number and quality of
papers arising from projects
These #’s include Centre
trainees and
core faculty
Book Chapters
Journal Articles
Total # of publications
Research funding arising
from the projects³
See also Formula for funding
and PIMS IGTC Funding4
Notes:
¹2012-2013, 2011-2012, 2010-11, 2009-10 and 2008-09 numbers represent Centre trainees during 200809 and 2009-10 and 2010-11 2011-2012 only. Previous years include trainees who had previously
completed their training at the Centre. Actual figures for 2006-07 and 2007-08 are now in brackets ( ).
²Book Chapters – does not include 3 books written during this time period.
³Yearly funding for the listed interdisciplinary research projects comes directly to the four core faculty
based on FEC reporting.
4
Formula for funding: (i) use FEC reporting amounts, (ii) exclude double counting any grants (i.e.
grants that are shared by two faculty); (iii) exclude any amounts that don’t come to the U of Alberta.
10
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
4
PIMS IGTC funding: funding from Pacific Institute for Mathematical Sciences to support the
International Graduate Training Centre
2) Education Initiatives
a) Number of undergrad, grad students (MSc & PhD) and postdocs trained
06-07
07-08
08-09
09-10
10-11
High School
1
0
0
2
2
Students
Undergraduates
4
2
5
7
6
Graduate Students
12
11
14
21
21
Postdocs
6
7
4
5
2
Research Associates 2
1
2
2
2
Total students and 25
21
25
37
33
postdocs
11-12
0
12-13
0
8
19
4
2
33
5
20
7
2
34
b)
Quality of training, awards and recognition of students, placements of students and postdocs
A major educational initiative is the International Graduate Training Centre (IGTC) in Mathematical
Biology. This is allowing us to recruit and support more high quality students.
c)
Awards, Fellowships & Graduates
06-07
07-08
Awards received by
11
22
graduate students
Number of graduating
2
3
students
08-09
33
09-10
32
10-11
26
11-12
17
12-13
14
3
1
5
4
6
3) Visitor Program
a) Number of visitors/seminar speakers
PIMS MathBio Seminar Speakers
Worldwide
PIMS MathBio Seminar Speakers from
the U of Alberta
Long and Short Term Visitors
Total Number of Visitors
06-07 07-08 08-09 09-10 10-11
16
18
15
13
14
11-12
3
12-13
6
7
7
12
13
12
11
13
1
24
1
26
13
40
14
40
10
36
3
17
7
26
Out of town visitors were scheduled to meet with students, postdocs and faculty to discuss mutual
research topics.
11
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
4) Outreach
Dr. Lewis gave a public lecture at the University of Victoria on Mathematics of Planet Earth and a
presentation to graduate students at the PIMS Young Researchers Conference at the University of Alberta. In
May 2013, Dr. Lewis was a Distinguished Lecturer at a Mathematics of Planet Earth Summer School entitled
The Mathematics Behind Biological Invasions, held at the University of Alberta. Dr. Lewis along with Dr.
Hillen and postdoc, Jonathan Potts, organized this event.
The article in Ecological Applications - a collaborative effort with grad student Stephanie Peacock –
garnered a lot of press coverage. Dr. Lewis and Stephanie worked with the UA press office plus there were
articles nation-wide, including papers such as the Globe and Mail.
Dr. de Vries gave 2 lectures for high school students through the Centre for Global Education and 2 public
lectures, the first in February 2013, for the Mathematics of Planet Earth and the Canadian Mathematical
Society and the other in June 2013, for the Canadian Applied and Industrial Mathematics Society Annual
Meeting. She also was a panel member and gave a presentation to high school students through the AIHS
Heritage Youth Research Summer Program (HYRS).
Dr. Wang continues to actively recruit graduate students through his personal connections and his frequent
visits to Chinese universities.
12
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
APPENDIX A
Major Stakeholders and terms of reference
Individual Researchers:
1)
Core faculty during the 2011-12 period were;
 Gerda de Vries
 Thomas Hillen
 Mark Lewis
 Hao Wang
Core faculty use the Centre, typically, on a daily basis and run Centre activities. They, their students and
postdocs, define the Centre and its initiatives. They have access to Centre facilities including; computing
resources, library, and office space for postdocs and visitors.
2) Associated faculty in mathematical biology in Mathematical & Statistical Sciences;
 Herb Freedman
 Subhash Lele
 Michael Li
These faculty members use the Centre occasionally and typically interact with core faculty (above) on some
of the Centre activities and research. Centre resources are available to the associated faculty on a request
basis.
3)
Associated faculty in mathematical biology across campus with some interactions at the Centre;
 Evelyn Merrill, Biological Sciences
 Janice Cooke, Biological Sciences
 Julia Foght, Biological Sciences
 David Coltman, Biological Sciences
 Andrew Derocher, Biological Sciences
 Tariq Siddique, Renewable Resources
 I.E. Leonard, Mathematical and Statistical Sciences
 Henry Van Roessel, Mathematical and Statistical Sciences
 Russ Grenier, Computer Science
 Peter Steffler, Engineering
 Jack Tuszyski, Cross Cancer Institute
This list is flexible and changes over time. Interactions with associate faculty range from collaboration in
multidisciplinary research groups, to being regular participants in Centre activities. These faculty members
do not typically have access to, or need for, Centre resources; however, they benefit through the scientific
and collaborative interactions.
13
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
APPENDIX A (Continued)
4)
Institutions which have supported the Centre through funding and administration:
 Department of Mathematical and Statistical Sciences
 Faculty of Science
 Mathematics of Information Technology and Complex Systems (MITACS) NCE
 Pacific Institute for Mathematical Sciences (PIMS)
 Vice President of Research Office
Support from these institutions is vital for the success of the Centre. The Department of Mathematical and
Statistical Sciences, the Faculty of Science and the VP Research Office contributed the core funding of the
Centre. Administration of the Centre falls within the Department of Mathematical and Statistical Sciences
and the Faculty of Science. PIMS and MITACS support Centre activities (such as the Undergraduate
Summer Workshop, internships, etc.) The institutions benefit from the scientific and educational activities in
the Centre.
5) Affiliated research groups who benefit from their association with the Centre:
These include researchers/research groups, external to the University of Alberta, that are involved in the
multidisciplinary research projects and have co-authored publications.
Project
Animal
Movement
Modelling
Biological
Invasions
Cell
Movement
Evolution of
Cell Size and
Body Size
F1000
Infectious
Disease
Modelling
Instream Flow
Needs: A
Mechanistic
Model-based
Approach
Microbiology
Researchers/Research Group
Michael J. Plank (University of Canterbury, NZ), Edward A. Codling (University
of Essex, UK), Dan P. Costa, Patrick W. Robinson( University of California-Santa
Cruz), Ian D. Jonsen, Joanna Mills-Fleming (Dalhousie) Andrew Edwards, Valerie
Harvey, Mike Hammill, Douglas Swain (Fisheries & Oceans Canada), Luca
Giuggioli, Stephan Harris (Bristol), Christian Lydersen, Kit Kovacs (Norwegian
Polar Institute) Marianne Marcoux, Murray Humphries (McGill) Brunero Liseo
(Universitá di Roma) Philip Maini (Oxford), Sergei Petrovskii (Leicester)
Lionel Roques, Etienne K. Klein (INRA), Thomas Giletti, Francois Hamel (AixMarseille Université) Gregoire Nadin (Laboratoire Jaques-Louis Lions)
Kevin Painter, (Heriot-Watt University, Edinburgh), Michael Winkler(Universität
Paderborn)
Heiko Enderling, Philip Hahnfeldt (Center of Cancer Systems Biology, University
School of Medicine, Boston)
Frithijof Lutscher (Ottawa), Yu Jin (Nebraska), Jon Jacobsen (Harvey Mudd)
14
Centre for Mathematical Biology (CMB)
Mountain Pine
Beetle
Modelling
Other
Models for
Population
Cycles
Risk
Assessment of
Oil Sands
Related
Contaminants
to Aquatic
Biodiversity
Mathematical
Models of
cancer and
cancer therapy
Sea Lice in
Salmon
July1, 2012 to June 30, 2013
Inka Lusebrink (Southhampton, UK), Barry Cooke (Natural Resources Canada)
Michel Cristofol (Aix-Marseille Université), Francois Hamel (Helmholtz Zentrum
Munich), Lionel Roques (INRA), Bingtuan Li (Louisville), Wenlong Wang
(China), Mark Kot (Washington), Michael Neubert (Woods Hole Oceanographic
Institute)
Sharon Stitcher (Cambridge), Elizabeth Crone (Harvard)
Caroline Bampfylde (Alberta Environment)
Kevin Painter (Heriot-Watt University, Edinburgh), Marcello Delitala (Turin, Italy)
Marty Krkosek (Otago, NZ & Toronto), Jaime Ashander University of California,
Davis), Neil Frazer (Salmon Coast Field Station & U of Hawaii), Carrie A. Holt,
Simon Jones, Peter Chandler, Michael Foreman (Fisheries & Oceans Canada), Stan
Proboscsz, Craig Orr (Watershed Watch Salmon Society, BC), Luke Rogers
(Otago, NZ), Peter McKenzie (Mainstream Canada), Sharon DeDominicis (Marine
Harvest Canada), Crawford Revie, (U of PEI)
Theory of
Delay
Differential
Equations
15
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
APPENDIX B
Metrics for Evaluating the Centre for Mathematical Biology
1. Multidisciplinary Research Projects
 Number of multidisciplinary researchers involved in projects (in Dept., on Campus or Other)
 Number and quality of papers arising from projects
 Research funding arising from projects
2. Educational Initiatives
 Number of undergrads, grad students (MSc and PhD) and postdocs trained
 Quality of training, awards and recognition of students, placements of students and postdocs
3. Visitor Program
 Number of visitors/seminar speakers
4. Outreach
Outreach is communication of Centre research and educational endeavours to individuals who do not
typically participate in the same or similar activities. Groups of these individuals include, but are not
restricted to;
i. Media
ii. School groups
iii. The general public
16
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
APPENDIX C
Centre Publications (trainees in bold)
Journal Publications
1. Bachman Jeff, Hillen Thomas (2013) Mathematical optimization of the combination of radiation and
differentiation therapies for cancer. Frontiers in Molecular and Cellular Oncology 3: 52
2. Breed, G. A., Costa, D. P., Robinson, P.W., Jonsen, I. D., Mills-Flemming, J. (2012) State-space methods
for better inference of behavioral dynamics in tracked animals. Ecological Modelling 235-236:49-58
3. Breed, G. A., Stitcher, S., Crone, E.E. (2012) Climate-driven changes in northeastern US butterfly
communities. Nature:Climate Change - Earlyview, 3:142-145.
4. Costa, D. P., Breed, G. A., Robinson, P. W. (2012) New insights into pelagic migrations: ecology and
conservation. The Annual Review of Ecology, Evolution, and Systematics 43:73-96
5. Cristofol, Michel, Garnier, Jimmy, Hamel, Francois, Roques, Lionel (2012) Uniqueness from pointwise
observations in a multiparameter inverse problem, 11(1):173-188
6. Edwards, A. M., Freeman, M. P., Breed, G. A., Jonsen I. D. (2012) Incorrect likelihood methods were used
to infer scaling laws of marine predator search behaviour. PLoS ONE 7(10): e45174
7. Garnier, Jimmy, Giletti, Thomas, Hamel, François Roques, Lionel (2012) Inside dynamics of pulled and
pushed fronts, Journal de Mathématiques Pures et Appliquées, 98(4):428-449
8. Garnier, Jimmy, Giletti, Thomas, Nadin, Gregoire (2012) Maximal and minimal spreading speeds for
reaction diffusion equations in nonperiodic slowly varying media. Journal of Dynamics and Differential
Equations, 24(3):521–538
9. Garnier, Jimmy, Roques, Lionel, Hamel, Francois (2012) Success rate of a biological invasion in terms of
the spatial distribution of the founding population. Bulletin of Mathematical Biology, 74:453-473
10. Giuggioli L, Potts J.R., Harris S. (2012) Predicting oscillatory dynamics in the movement of territorial
animals. Journal of the Royal Society Interface 9(72):1529-1543
11. Goodsman, Devin W., Lusebrink, Inka, Landhaeusser, Simon M., Erbilgin, N., Lieffers V.J. (2013)
Variation in carbon availability, defense chemistry and susceptibility to fungal invasion along the stems of
mature trees. New Phytologist. 197(2): 586-594
12. Harvey, V., Hammill, M.O. Swain, D.P. Breed, G. A. Lydersen C., Kovacs, K.M. (2012) Winter foraging
by a top predator, the grey seal, in relation to the distribution of prey. Marine Ecology Progress Series.
462:273-286
13. Hillen Thomas, Enderling, Heiko, Hahnfeldt Philip (2013) The tumor growth paradox and immune systemmediated selection for cancer stem cells. Bulletin of Mathematical Biology 75(1): 161-184
14. Hillen Thomas, Painter Kevin J., Winkler Michael (2013) Anisotropic diffusion in oriented environments
can lead to singularity formation. European Journal of Applied Mathematics 24(03): 371-413
15. Hillen Thomas, Zielinsky Jeff (2013) Merging-emerging systems can describe spatio-temporal patterning in
a chemotaxis model. Discrete and Continuous Dynamical Systems-Series B 18(10): 2513-2536
16. Huang, Q., Parshotham, L., Wang. H., Bampfylde, C., Lewis, M.A. (2013) Mathematical risk assessment
of contaminants on fish population dynamics. Journal of Theoretical Biology, 334: 71-79.
17. Krkošek, M., Ashander, J., Frazer, N., Lewis, M.A., (2013) Allee effect from parasite spill-back. American
Naturalist, 182(5): 640-652
17
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
18. Lewis, M.A., Li, B. (2013) Spreading speed, traveling waves and the minimal domain size in impulsive
reaction-diffusion models, Bulletin of Mathematical Biology, 74(10):2383-2402.
19. Lin, Xihui, Wang, H. (2012) Stability analysis of delay differential equations with two discrete delays. The
Canadian Applied Mathematics Quarterly. 20(4): 519-533.
20. Marcoux, M., Auger-Méthé, M., Humphries, M.M. (2012). Variability and context-specificity of narwhal
(Monodon monoceros) whistles and pulsed calls. Marine Mammal Science 28:649-665
21. Painter Kevin J., Hillen Thomas (2013) Mathematical modelling of glioma growth: the use of DTI data to
predict the anisotropic pathways of cancer invasion Journal of Theoretical Biology 323: 25-39
22. Peacock, Stephanie J., Holt, Carrie A. (2012) Metrics and sampling designs for detecting trends in the
distribution of spawning Pacific salmon (Oncorhynchus spp.) Canadian Journal of Fisheries and Aquatic
Sciences,69(4): 681-694
23. Peacock, S.J., Krkošek, M., Proboscsz, S., Orr, C., Lewis, M.A. (2013) Cessation of a salmon decline with
control of parasites. Ecological Applications, 23(3): 606-620.
24. Piazza Nicholas, Wang Hao. (2013) Bifurcation and sensitivity analysis of immunity duration in an
epidemic model. International Journal of Numerical Analysis & Modeling, Series B. 4(2): 179-202
25. Potapov, A., Merrill, E., Lewis, M.A. (2012) Wildlife disease elimination and density dependence.
Proceedings of the Royal Society B, 279(1741): 3139-3145.
26. Potts J.R., Harris S & Giuggioli L. (2012) Territorial dynamics and stable home range formation for central
place foragers. PLoS One 7(3)
27. Rajakaruna, H., Potapov, A., Lewis, M.A. (2013) Impact of stochasticity in immigration and
reintroductions on colonizing and declining populations. Theoretical Population Biology, 85: 38-48.
28. Roques, Lionel, Garnier, Jimmy, Hamel, François, Klein, Etienne K. (2012) Allee effect promotes
diversity in traveling waves of colonization, Proceedings of the National Academy of Sciences of the United
States of America, 109(23):8828-8833
29. Rogers, Luke A., Peacock, Stephanie, J., McKenzie, Peter, DeDominicis, Sharon, Jones, Simon R.M.,
Chandler, Peter, Foreman, Michael G.G., Revie, Crawford W., Krkosek, Martin (2013) Modeling Parasite
Dynamics on Farmed Salmon for Precautionary Conservation Management of Wild Salmon, PLoS ONE,
8(4): e60096.
30. Tancredi, A., Auger-Méthé, M. Marcoux, M. Liseo, B (2013) Accounting for matching uncertainty in two
stage capture-recapture experiments using photographic measurements of natural marks. Environmental and
Ecological Statistics 20:647-655
31. Thanarajah, Silogini, Wang, Hao. (2013) Competition of motile and immotile bacterial strains in a petri
dish. Mathematical Biosciences and Engineering. 10(2): 399-424.
32. Vasilyeva, Olga, Lutscher, Frithjof (2012) Competition of three species in an advective environment,
Nonlinear Analysis: Real World Applications, 13(4):1730-1748
33. Vasilyeva, Olga, Lutscher, Frithjof (2012) How flow speed alters competitive outcome in advective
environments, Bulletin of Mathematical Biology, 74(12):2935-2958.
Book Chapters
34. Delitala, M., Hillen T. (2013) The Language of Systems Biology: bridging the scales. Managing complexity,
reducing perplexity. Modeling biological systems. Eds: J.A. Marsan and M. Delitala et al.
35. Hillen, Thomas, Lewis Mark. (2013) Mathematical Ecology of Cancer. Managing complexity, reducing
perplexity. Modeling biological systems. Eds: Julia A. Marsan and Marcello Delitala.
18
Centre for Mathematical Biology (CMB)
July1, 2012 to June 30, 2013
Books
36. Hillen Thomas, Leonard, I.E., Van Roessel Henry. (2012) Partial Differential Equations: Theory and
Completely Solved Problems. Pages: 678. Eds: Susanne Steiz-Filler. Publisher: Wiley.
37. Lewis, M.A., Maini, P.K, Petrovskii, S. (2012) Dispersal, Individual Movement and Spatial Ecology: A
Mathematical Perspective, Springer-Verlag.
38. Plank, M.J., Auger-Méthé, M, Codling, E.A. (2013) Lévy or not? Analysing positional data from animal
movement paths. Eds: M. Lewis, P.K., Maini, and S.V. Petrovskii (eds.) Dispersal, Individual Movement
and Spatial Ecology: a Mathematical Perspective. Lecture Notes in Mathematics Vol 2071, 33-52, Springer.
39. Wang, Hao (2012) Mathematical Modeling I - preliminary, ISBN: 978-87-403-0248-6, Ventus Publishing.
40. Wang, Wenlong and Wang Hao (2013). Elementary Algebra Exercise Book I, ISBN: 978-87-403-0315-5,
Ventus Publishing.
Other
41. Kot, M., Lewis, M.A., Neubert, M.G. (2012). Integrodifference Equations. In A. Hastings and L. Gross
(Eds.) Sourcebook in Theoretical Ecology, University of California Press.
42. Lewis, M.A., Jerde, C. (2012). Invasion Biology. In A. Hastings and L. Gross (Eds.) Sourcebook in
Theoretical Ecology, University of California Press.
43. Lewis, M. (2012) Heavy use of equations impedes communication amongst biologists. Faculty 1000
109(29): 11735-11739.
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