Talks Given by QuanTI Members at International Conferences

Viral Dynamics: Past, Present, & Future
Santa Fe, USA, 5-7 May 2017

Rob de Boer gave a presentation on "How germinal centers evolve broadly neutralizing antibodies: the breadth of follicular helper T cell response"

Modeling Viral Infections and Immunity
Colorado, USA 1-4 May 2017

This conference was organised by Alan Perelson, Rob De Boer and Phillip D. Hodgkin. The session on Modeling Cellular Immune Responses was also chaired by Philip Hodgkin, and Rob de Boer chaired the session on Session on Spatial Aspects of Infection.

The following members gave talks at this conference:

Becca Asquith - "KIRs, CD8+ T Cell Dynamics and Control of Chronic Viral Infection"

Rob De Boer - "Broad CD8 Immune Responses to HIV"

Phillip Hodgkin- "Formation of Effector and Memory Cells"

Thomas Hofer - "Dengue Virus Spread and Innate Immune Response at the Single-Cell Level"

BSSE Annual Research Symposium 2017: Computational Bioengineering
Indian Institute of Science, Bangalore, 27-28 January 2017

Grant Lythe was a speaker at this symposium and gave a presentation on "Is immunology like astronomy?"

There are approximately 400000000000 T cells in your body, about the same as the number of stars in our galaxy. We cannot manually count, let alone examine the interior machinery of, many cells or stars in situ. Those cells and stars that we can see, we only see at one instant of their long lifetimes. Instead, we have to rely on extrapolation from small samples and on indirect measurements, deducing what we can about processes in the interior from observations of their surface, imaging and data analysis, and computational models. T cells are produced in the thymus and circulate through a human body, using T-cell receptors to probe the surfaces of antigen-presenting cells they come into contact with. How many different types of T cells do we have? The number of T cells of one type is an integer that increases or decreases by one cell at a time, when a cell divides or a cell dies. Immune responses rely on encounters between T cells and dendritic cells in lymph nodes. Stochastic models of immune system dynamics, describing millions of cells that interact with each other and with their environment, are more realistic than deterministic ones. Fortunately, stochastic models are also practical because analytical and numerical methods, and open-source software, are available.

Symposium schedule

Joint BSI and NVVI Congress 2016
Liverpool, UK, 6-9 December 2016

Ton Schumacher gave the NVVI – Van Loghem lecture on "T-cell recognition and tumor resistance in human cancer"
Scientific programme

4th Conference on Systems Approaches in Immunology and Infectious Diseases
Los Alamos National Laboratory, Santa Fe, USA, 27-28 September 2016

Jose Borghans was an invited speaker at this conference and her presentation was entitled "Long-term T-cell memory: do long-lived memory cells exist?"

PDF of the program

International Congress of Immunology
Melbourne, Australia, 21-26 August 2016

Carmen Molina-Paris chaired a session on Computational Immunology & Systems Biology.

The following members also gave a talk (PDF of the program):

Grant Lythe - How many TCR clonotypes does a body maintain?

Phil Hogkin - Every immune cell counts: The calculus behind lymphocyte decision-making

European Conference on Mathematical and Theoretical Biology
Nottingham, UK, 11-15 July 2016

At this conference, there was a minisymposium on "Mathematical and Systems Immunology" [session MS-14-AM-04 Mathematical and Systems Immunology] that was organised by Marco Ferrarini, Luis de la Higuera Romero and Julio Lahoz-Beneytez. The session was chaired by Marco Ferrarini and comprised of the following talks:

Aridaman Pandit, University Medical Center Utrecht
"Using branching processes to model differentiation of effector and memory CD8+ T cells"

Grant Lythe, University of Leeds
"How many T cell receptor clonotypes does a body maintain?"

Sahamoddin Khailaie, Helmholtz Centre for Infection Research
"Information processing of time-integrated TCR-mediated signals during thymic selection"

Pedro Costa del Amo, Imperial College London
"What are the rules of T cell fate in humans in vivo?"

ECMTB mini-symposium
ECMTB mini-symposium
ECMPT mini-symposium
ECMTB mini-symposium

Saikrishna Gadhamsetty also gave a talk in the PS-14-PM-07 Fluids – Immunology session entitled "A Sigmoid Functional Response Suggesting 'Co-operation' Emerges When Cytotoxic T Lymphocyte Start Killing Fresh Target Cells"

6-month program on Stochastic Dynamical Systems in Biology: Numerical Methods and Applications
Isaac Newton Institute for Mathematical Sciences, Cambridge, UK, 4 January - 24 June 2016

Grant Lythe took part in this program and gave a talk on Stochastic modelling and immunology

Marco Ferrarini and Luis de la Higuera Romero also attended.

International Workshop on "Programmable Immunity" organised by the BSI Mathematical Modelling Affinity Group
Microsoft Research Cambridge, 16-17 June 2016

The following QuanTI members gave talks at this two day workshop, which was hosted by Microsoft Research Cambridge (PDF of the programme):

Marco Ferrarini, University of Leeds
"Sampling from T-cell repertoires"

Andrew Phillips, Microsoft Research Cambridge
"Selector function of MHC I molecules is influenced by protein plasticity"

IMS-JSI International Symposium on Immunology 2016
Yokohama, Japan, 16-17 June 2016

Domonkos Varga gave a poster presentation on "Do ST2+ and ST2- CD8 T-cells have a different memory capacity?"

Be Curious Festival
University of Leeds, 19 March 2016

This was a free, interactive event, suitable for everyone with an interest in health, wellbeing and the human body. Luis de la Higuera Romero, Marco Ferrarini, Grant Lythe and Carmen Molina-Paris all participated in the session on Mathematics in Health and Disease. Part of this session allowed visitors to play with software mimicking our immune system fighting an infection.

Be Curious
Be Curious

2nd KITP Workshop on Quantitative Immunology
University of California, Santa Barbara, USA, 1-19 February 2016

Several QuanTI partners gave a presentation at this conference:

Thomas Höfer - From Stem Cells to Immunity

Grant Lythe - How many TCR clonotypes does a body maintain?

Thomas Höfer - Regulation of T cell memory development in vivo inferred from single-cell data

Becca Asquith - KIRs, CD8+ T cell Dynamics & Control of Chronic Virus Infection

Rob de Boer - Modeling erosion of naive T cell repertoire diversity

Ken Duffy - T cell stimuli integration at the level of clones

Carmen Molina-Paris - A stochastic story of two receptors and two ligands

Annual meeting of the Dutch Society for Immunology (NVVI)
Noordwijkerhout, The Netherlands, 16-17 December 2015

Mariona Baliu Pique gave an oral presentation on the topic of "Adaptive Immunity".

Lyon Sysbio Conference
Lyon, France, 18-20 November 2015

Becca Asquith was an invited speaker and the title of her talk was "KIRs, Immune cell dynamics & Control of Chronic Viral Infection". Julio Lahoz Beneytez also presented a poster.

Probability in the North East
University of Leeds, 6 November 2015

Carmen Molina-Paris gave a presentation on "Stochastic modelling of T cell receptor clonotype competition".

Marco Ferrarini and Grant Lythe also attended. Programme of the conference.

Numerical Modeling in Evolutionary Problems: perspectives and applications
University of Salerno, Fisciano, Italy, 26-27 October 2015

Grant Lythe - New numerical methods for stochastic DEs and PDEs, numerics for Immunology (abstract)

Carmen Molina-Paris - Mathematical Immunology: an introduction (abstract)

PBPK Modelling Workshop
Bayer Technology Services, Leverkusen, 21-23 October 2015

Michael Block gave a presentation at the PK-Sim and MoBi Academic User Workshop.

Computational Medicine Workshop
Oxford, UK, 21 September 2015

Grant Lythe gave a talk at this workshop on "Stochastic modelling and Immunology"
PDF of workshop programme

Immune Profiling in Health and Disease
Seattle, USA, 9-11 September 2015

Yaxuan Yu presented a poster entitled "LymAnalyzer: A tool for comprehensive analysis of next generation sequencing data of T cell receptors and immunoglobulins"

PDF of programme

4th European Congress of Immunology
Vienna, Austria, 6-9 September 2015

Grant Lythe (in work with C. Molina Paris, R. Callard, R. Hoare) - How many TCR clonotypes does a body maintain?

4th International Retreat on Viral Infection, Immunity and Autoimmunity
Koblenz, Germany, 11-14 August 2015

Domonkos Varga gave a poster presentation on "Do ST2+ and ST2- CD8 T-cells have a different memory capacity?"

Bio-Modeling Workshop
Los Alamos National Laboratory, 7 August 2015
(PDF of programme)

Talks were given by:

Carmen Molina-Paris - "Mathematical modelling of CTLA-4: more than meets the eye"

Grant Lythe - "Modeling the T-cell repertoire"

Rob de Boer - "Immuno-epidemiological Modeling of HIV-1 Predicts High Heritability of the Set-Point Virus Load, while Selection for CTL Escape Dominates Virulence Evolution"

Motility in the Immune System: From Microscopic Movement to Macroscopic Function
Santa Fe Institute, USA, 29-30 July 2015

Rob de Boer was an invited speaker at this workshop and the title of his presentation was "Chemotaxis of CTL in the Skin"

Ninth q-bio Summer School
Albequerque, USA, 13-28 July 2015

Rob de Boer was an invited speaker and gave a presentation on"Modeling the Immune Response". He also led a lab-based session on "Fitting deuterium labeling data of T-cell dynamics".

Luis de la Higuera Romero, Harry Tideswell and Giulio Prevedello also gave student talks.

1st Porto Meeting in Mathematics and Biology
University of Porto, Portugal, 22-23 June 2015

Carmen Molina-Paris was one of the main speakers and gave a mini-course on "Stochastic birth and death processes in immunology"

Stochastic Single-Cell Dynamics in Immunology - Experimental and Theoretical Approaches
Royal Netherlands Academy of Arts and Sciences, Amsterdam, 17-19 June 2015

Talks were given at this event by the following QuanTI members (PDF of programme):

Phil Hodgkin - "The cellular mechanics of the immune response"

Ken Duffy - "Inferring the average generation of a population of cells"

Grant Lythe - "Stochastic modelling, mathematical and computational"

Ton Schumacher - "Function and kinship of tissue-resident memory T cells"

R. de Boer, L. Perie and J. Textor were the organizers, and the conference attracted about 50 scientists.

BSI - Mathematical Modelling in Infection and Immunity
Microsoft Research, Cambridge, 4-5 June 2015

Rob de Boer ("How much do CTL contribute to the death of HIV-I infected cells?") and Jose Borghans gave presentations at this meeting, and several fellows including Aridaman Pandit also attended.

3rd International Vistril Symposium
Braunschweig, Germany, 22 May 2015

Mariona Baliu Pique attended this annual meeting. PDF of the poster and programme

22nd International HIV Dynamics & Evolution: Promoting discussion between HIV specialists
HIV Dynamics and Evolution (PDF of programme)
Hungarian Academy of Sciences, Budapest, Hungary, 13-16 May 2015

Aridaman Pandit - "Targeting CCR5 Receptor Using Gene Therapy Will Not Be Sufficient To Cure HIV"

Rob de Boer - "How Rapidly are HIV‐1 Infected Cells Killed?"

Rob de Boer was also one of the session chairs.

Mathematics for Health and Disease
ICMS, Edinburgh, 13-17 April 2015

The primary objective of this meeting was to identify research themes in the area of mathematics for health and disease of common interest to the UK and India. Carmen Molina-Paris and Grant Lythe were on the team of organisers, along with Gautam Menon, Govindan Rangarajan, and Sitabhra Sinha.

Several QuanTI partners and fellows gave presentations:

Aridaman Pandit - "Branching processes to model differentiation of effector and memory CD8+ T cells" (abstract)

Grant Lythe - "Competition model of the T-cell repertoire" (pdf presentation)

Carmen Molina-Paris - "IL-7 in naive T cell homeostasis: modelling at the molecular, cellular and population scales" (pdf presentation)

Luis de la Higuera - "A stochastic approach on T-cell co-stimulation" (pdf presentation)

Marco Ferrarini - "T-cell clonal sizes simulations: An exploration of random extractions" (pdf presentation)

Annual Meeting of the Dutch Society for Immunology (NVVI)
Kaatsheuvel, the Netherlands, 17-19 December 2014

This anniversary congress was attended by Mariona Baliu Pique. PDF of programme

Modelling Infectious Diseases
Coorg, India, 30 November - 2 December 2014

Rob de Boer was one of the keynote speakers at this workshop and he gave a presentation on "Host Pathogen Interactions: Bridging Immunology and Epidemiology"

5th International Workshop on CMV and Immunosenescence
Amsterdam, 20-21 November 2014

Jose Borghans gave a presentation on "Lymphocyte dynamics in healthy aging and disease". Mariona Baliu Pique also attended the workshop.

York Computational Immunology Lab Inaugural International Meeting -
York, 3-4 November 2014

This meeting was on Computational and Mathematical Approaches to Immunological Challenges and included a talk by Becca Asquith on "Efficiency of the CD8+ T cell response to persistent viral infection"

Symposium on Computational Biomedicine for Translational Research
Aachen, Germany, 6-7 October 2014

Andreas Schuppert opened and closed this symposium and also chaired a session. Julio Lahoz Beneytez also attended.

Talks were given by the following members:

Joerg Lippert - "Applications of Modeling & Simulation in Pharmaceutical Development"

Linus Goerlitz - "Bayesian PBPK"

First International and Interdisciplinary Workshop on the Ecology, Evolution and Dynamics of Dengue and other Related Diseases
Arizona, USA, 4-5 August 2014

Grant Lythe and Carmen Molina-Paris gave talks at this workshop.

International Conference on Host-pathogen Interaction
NIAB, Hyderabad, 12-15 July 2014

Carmen Molina-Paris - "IL-7 in T cell homeostasis: modelling at the molecular, cellular and population levels"

PDF of the programme

Launch Meeting of the UCL Immunity and Infection Computational Hub
"Novel Insights From Computational Approaches to Infection and Immunity"
Royal Free Hospital, London, 30 June 2014

Rob de Boer was the keynote speaker at this meeting and gave a presentation on "A natural slowing down of HIV immune escapes despite excellent immune control"

Pedro Costa del Amo also attended.

PDF of the programme

Summer Frontiers 2014
Nijmegen, the Netherlands, 12-13 June 2014

Jose Borghans gave an oral presentation at tis symposium on Age and Immunity.

Annual Meeting of the Population Approach Group in Europe
Alicante, Spain, 10-13 June 2014

Thomas Eissing gave a presentation on "Target validation and lead optimization in drug development for diabetes using a physiologically-based PK/PD model of the glucose-insulin regulatory system".

Julio Lahoz Beneytez also attended the meeting.

Bordeaux Modelling Workshop
Bordeaux/ISPED, 5-6 June 2014

The following members gave talks during the workshop (PDF of programme):

Rob de Boer - "A natural slowing down of HIV immune escapes despite excellent immune control"

Jose Borghans - "T-cell dynamics: from healthy ageing to stem-cell transplantation"

Grant Lythe - "IL-7 thresholds and naive T cell homeostasis"

British Society for Immunology Affinity Group in Mathematical Immunology
Microsoft Research Cambridge, 19-20 May 2014

Carmen Molina-París - "IL-7 in T cell homeostasis: modelling at the molecular, cellular and population levels"

Aridaman Pandit - "Modelling cytotoxic T lymphocyte fate commitment dynamics"

This meeting was also attended by various QuanTI fellows.

PDF of the programme

Quantitative Immunology workshop
Les Houches, France, 9-14 March 2014

Rob de Boer - "The rate at which HIV-1 infected cells get killed is expected to be fairly independent of the CTL immune response"

Thomas Höfer - "Hematopoietic flux is sustained by a self-renewing progenitor reservoir with rare polyclonal stem cell input"

Carmen Molina-Paris - Mathematical model of naive T cell homeostasis: IL-7 thresholds

Becca Asquith and Ton Schumacher also attended the workshop.

Systems Approaches in Immunology
Santa Fe, NM. 10-11 January 2014

The third biennial conference on "Systems Approaches in Immunology and Infectious Diseases" included the following talks (PDF of programme):

Rob De Boer - "How germinal centers evolve broadly neutralizing antibodies"

José Borghans - "Maintenance of the lymphocyte pool during healthy aging: no signs of peripheral homeostatic compensation"

Grant Lythe - "How many TCR clonotypes does a body maintain?"

NVVI Annual Meeting 2013
Noordwijkerhout, The Netherlands, 18-19 December 2013

The fellow Sara Ciprut attended this annual meeting.

Mathematical modelling affinity group session at the BSI congress 2013
Liverpool, 5 December 2013

This session on "Quantitative approaches to immunology: new experimental challenges" was organised by Mark Coles and Carmen Molina-París. PDF of programme

Stochastic, statistical and computational approaches to Immunology
Edinburgh, UK, 22-26 July 2013

Ken Duffy and Carmen Molina-Paris, along with Arup Chakraborty and Daniel Coombs, organised this workshop. The primary objective was to continue the current effort in Mathematical Immunology that has been initiated by a series of international meetings.

Talks were given by:

Ken Duffy - "Competition, censorship and cell fates" (abstract)

Thomas Höfer - "Inferring the program of T cell diversification from in vivo fate mapping"(abstract)

Grant Lythe - "Stochastic dynamics and the adaptive immune system" (pdf presentation)

Carmen Molina-París - "Modelling immune processes at the molecular, cellular and population levels" (pdf presentation)

Luis de la Higuera Romero and Cathal Seoighe also attended the workshop.

BSI Mathematical Modelling Affinity Group
Microsoft Research, Cambridge, 4-5 May 2013

Ken Duffy - "Competition, Censorship and B Cell Fates"

PDF of programme

Quantitative Immunology
Les Houches, France, 9-14 March, 2013

This workshop aimed to bring together researchers that develop new experimental tools, both experimentally and theoretically, along with established immunologists that are open to a quantitative perspective. The belief is that this will lead to new directions in the understanding the immune system.

The following QuanTI members gave presentations:

Carmen Molina-Paris - "Mathematical model of naive T cell homeostasis: IL-7 thresholds"

Thomas Höfer - "Hematopoietic flux is sustained by a self-renewing progenitor reservoir with rare polyclonal stem cell input"

Rob de Boer - "The rate at which HIV-1 infected cells get killed is expected to be fairly independent of the CTL immune response"

Becca Asquith, Ton Schumacher and QuanTI fellows also attended the workshop.

Les Houches

Participation of QuanTI fellows at the workshop


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Last update: 11 June 2017