Entrance hall of the ICMS

Stochastic, statistical and computational approaches to Immunology

Jul 22, 2013 - Jul 26, 2013

ICMS, 15 South College Street, Edinburgh, EH8 9AA

Organisers

Name Institution
Chakraborty, Arup Massachusetts Institute of Technology
Coombs, Daniel University of British Columbia
Duffy, Ken National University of Ireland, Maynooth
Molina-Paris, Carmen University of Leeds

 

The primary objective of this workshop is to continue the current effort in Mathematical Immunology that has been initiated by a series of international meetings.
 
The second objective of the workshop is to enhance and train the strong mathematical immunology community emerging in the UK, with particular emphasis on young scientists in the field. The workshop will bring state-of-the-art knowledge to the UK community, improve communication between the two main groups involved (immunologists and modellers=mathematicians, statisticians and computer scientists), disseminate new results and encourage novel approaches/methodologies to existing open problems.

The workshop will consist of both invited and contributed talks, introductory lectures and problem-posing talks. The workshop will focus on stochastic, statistical and computational approaches to Immunology and will include the following topics: stochastic processes in Immunology,statistical analysis of censored data, challenges for multi-scale modelling, T cell receptor diversity, and T cell immunology and modelling in the thymus and in the periphery.

 

 

Arrangements

The workshop will commence with Registration early on Monday 22 July and close at 12.30 on Friday 26 July.   Please take these timings into account when considering your accommodation and travel plans. 

 

Participation

Applications for this workshop have now closed. 

Please note that 'Invited Participants and Public Applicants should arrange and cover their own accommodation and travel.  Please see the 'Accommodation' section below for suggestions for places to stay.

 

Venue
The workshop will be held at 15 South College Street, Edinburgh.  You may also find this map useful for the workshop.  All lectures will be held in the Newhaven Lecture Theatre.    The Lecture Theatre is equipped with a data projector, computer, visualiser and two blackboards.  The projector and one board may be used simultaneously.  

 

Travel
Information about travel to the UK and Edinburgh is available here.

Please note that it is your responsibility to have adequate travel insurance to cover medical and other emergencies (volcanic ash disruptions) that may occur on your trip.

A taxi directly from the airport will cost approximately 16.00 to 20.00 GBP to the city centre for a one-way journey.     There is also a bus service direct from the airport to the city centre which will cost 3.50 single or 6.00 GBP return - the Airlink 100.  This is a frequent service (every 10 minutes during peak times) and will bring you close to Waverley Railway Station, only a short walk to the accommodation and the workshop venue (see map in 'Venue' section above). 

Lothian buses charge £1.50 for a single, £3.50 for a day ticket. Please note that the exact fare is required and no change is given.

If travelling by train, please note that Edinburgh has two railway stations - Waverley Railway Station being the main station and closest to the workshop venue at 15 South College Street. If you alight at Edinburgh Waverley, the workshop venue is an easy 10 minute walk over North and South Bridge. The second railway station is called Haymarket and is at the West End of the city centre.

 

UK Visas
If you are travelling from overseas you may require an entry visa. A European visa does not guarantee entry to the UK. Please use this link to the UK Visas site to find out if you need a visa and if so how to apply for one.

 

Accommodation

  • Invited Speakers, Organisers and Scientific Advisors: accommodation has been arranged by ICMS and full details emailed to all involved.

  • Invited Participants and Public Applicants: should arrange and pay for your own accommodation. 
    Many participants will be staying at Pollock Halls of Residence so you may wish to consider this as your first option.   Some suggestions are below:

    Masson House, Pollock Halls of Residence, The University of Edinburgh, 18 Holyrood Park Road, Edinburgh EH16 5AY
    University of Edinburgh accommodation. Pollock Halls is about a 20-25 minute walk.
    Masson House at Pollock Halls is very suitable and many of the Speakers and Organisers will stay there.

    Jurys Inn Edinburgh, 43 Jeffrey Street, Edinburgh EH1 1DH (approx 90.00 GBP per night)
    +44 (0)131 200 3300 - www.jurys-edinburgh-hotels.com
    Only a 5 minute walk from ICMS.

    Edinburgh City Hotel, 79 Lauriston Place, Edinburgh, EH3 9HZ  (approx 70-80 GBP per night)
    +44 (0)131 622 7979 - http://www.edinburghcityhotel.com/

    St Christophers Hostel, 9-13 Market Street, Edinburgh EH1 1DE  (approx 25.00 or less depending on offers available)
    +44 (0)20 7407 1856 -  www.st-christophers.co.uk - bookings@st-christophers.co.uk
    This is Youth Hostel accommodation.

Further details and many more suggestions for accommodation can be found here 

 

Poster Session
The poster session will take place on Monday 22 July, 17,30-19.00.  At this time there will be an informal wine reception and time for all participants to view and discuss posters.

 

Catering
Refreshments will be provided during coffee breaks throughout the event.  There will be a light buffet lunch provided on Monday, Tuesday and Thursday of the workshop and an informal wine reception with the Poster session on Monday evening.  The workshop dinner will take place on Tuesday 23 July.  

 

Wireless Access
The workshop venue, 15 South College Street, has wireless access throughout. On arrival at Registration you will be given instructions and a code for accessing the wireless network.  For those without laptops, there will also be a couple of computers available for you to check your emails. 

 

Financial Matters
Registration Fee

A registration fee of 75.00 GBP will be payable by all attending the workshop.  To pay in advance, please print out the credit/debit card payment form and complete by filling in your details.  As email is not secure, the completed form should be faxed to me using the fax number at the top of the form.   The fax machine is in a locked room and your details will be kept securely until payment is taken.  A receipt will be emailed to you.
Alternatively, we can accept sterling cheques, made payable to “Heriot-Watt University” but sent to Audrey Brown, ICMS, 15 South College Street, Edinburgh, EH8 9AA.  If you have any difficulty in paying in advance please email  audrey.brown(at)icms.org.uk   to arrange an alternative payment method.

Accommodation cost payment (only applies to some Public Applicants) If you have agreed to have accommodation reserved by ICMS and are to pay the costs, you may simply add the amount to the registration fee and use the same form above to make this payment.   The rooms reserved cost 50.00 GBP per night.   

Travel Reimbursement (only applies to some Speakers)
If it has previously been agreed to reimbursement of some of your travel costs, you will be given a claim form at Registration.  The money will be reimbursed directly into your bank account after the event.   It would be helpful if you could bring your bank details to the workshop. In addition to the bank account number, participants from the USA will require their bank routing number, those from the UK will be asked for the bank sort code, and those from the rest of the world, an IBAN and SWIFT/BIC code.  Please note that I cannot reimburse any item without a signed claim form and original receipts (although electronic tickets for flights can simply be emailed to me if they contain your name and the amount paid).
 

 

Programme

Please continue to check the Programme for any alterations prior to the workshop.

Session Chairs:
Rajat Varma - Monday morning
Arup Chakraborty - Monday afternoon
Dan Coombs - Tuesday morning
Miles Davenport - Tuesday afternoon (before coffee break)
Roland Regoes - Tuesday afternoon (after coffee break)
Ben Seddon - Wednesday morning
TBC - Thursday
Leila Perié - Friday morning

 

Monday 22 July 2013

09.00-10.00

Registration & coffee in the Chapterhouse, Level 1

10.00-11.00

Arup Chakraborty (Massachusetts Institute of Technology)
How to hit HIV where it hurts

11.00-11.30

Coffee/Tea in the Chapterhouse

11.30-12.30

Miles Davenport (University of New South Wales)
Mechanisms of age-associated immunity to P. falciparum malaria

12.30-14.00

Lunch provided in the Chapterhouse

14.00-15.00

Daniel Coombs (University of British Columbia)
Branching process models for HIV and SIV infection

15.00-16.00

Roland Regoes (ETH Zurich)
Lymph node colonisation dynamics after oral Salmonella Typhimurium infection in mice 

16.00-16.30

Coffee/Tea in the Chapterhouse

16.30-17.30

Simeone Marino (University of Michigan Medical School)
Hybrid computational models of granuloma formation during tuberculosis infection

17.30-19.00

Poster Session and Informal Wine Reception in Chapterhouse

 

Tuesday 23 July 2013

09.00-10.00

Rajat Varma (National Institutes of Health / NIAID)
TCR microclusters as platforms for ligand discrimination

10.00-11.00

Brian Evavold (Emory University)
Two-dimensional affinity range of antigen specific regulatory T cells

11.00-11.30

Coffee/Tea in the Chapterhouse

11.30-12.30

Omer Dushek (University of Oxford)
Systems model of T cell receptor proximal signalling reveals emergent ultrasensitivity

12.30-14.00

Lunch provided in the Chapterhouse

14.00-15.00

Cheng Zhu (Georgia Institute of Technology)
Antigen-specific TCRpMHC catch bond enables force to trigger T cell signalling

15.00-16.00

Deborah Dunn-Walters (King's College London School of Medicine)
Human B cell repertoires: age challenges

16.00-16.30

Coffee/Tea in the Chapterhouse

16.30-16.50

Deborah Cromer (University of New South Wales)
Estimating cytomegalovirus growth rates by using only a single point

16.50-17.10

Nick Savill (University of Edinburgh)
How maternally transferred immunity alters rodent malaria infection dynamics and protects against death

17.10-17.30

Floriane Lignet (INRIA)
Mathematical modelling of in vivo CD8 T cell proliferation

19.00

Workshop Dinner at the Magnum Restaurant, 1 Albany Street, Edinburgh

 

Wednesday 24 July 2013

09.00-10.00

Leila Perié (Netherland Cancer Institute / Utrecht University)
Single cell tracing of hematopoiesis using cellular barcoding

10.00-11.00

Ken Duffy (National University of Ireland, Maynooth)
Competition, censorship and cell fates

11.00-11.30

Coffee/Tea in the Chapterhouse

11.30-12.30

Thomas Höfer (German Cancer Research Center - DKFZ)
Inferring the program of T cell diversification from in vivo fate mapping

12.30

Free afternoon

 

Thursday 25 July 2013

09.00-10.00

Joost Beltman (Netherlands Cancer Institute)
The role of subtle directed migration during immune responses

10.00-11.00

Grant Lythe (University of Leeds)
Stochastic dynamics and the adaptive immune system  pdf of presentation

11.00-11.30

Coffee/Tea in the Chapterhouse

11.30-12.30

Giorgio Guzzetta (Trento Rise)
The role of ageing and immune memory in the outcome of Mycobacterium Tuberculosis infection
pdf of presentation

12.30-14.00

Lunch provided in the Chapterhouse

14.00-15.00

Tom Weber (National University of Ireland, Maynooth)
Flux analysis indicates G2 dependent immigration into the dark zone of germinal centres

15.00-16.00

Edwin Hawkins (Imperial College London)
Construction and application of the cyton model of lymphocyte responses: quantitative analysis of fate regulation in lymphocytes

16.00-16.30

Coffee/Tea in the Chapterhouse

16.30-16.50

Neil Dalchau (Microsoft Research)
Conformational change of MHC class I molecules is required for efficient antigen presentation

16.50-17.10

Martín López García (Complutense University of Madrid)
Extreme values in competition processes  pdf of presentation

17.10-17.30

Hannah Mayer (University of Bonn)
A stochastic model of T cell activation  pdf of presentation

17.30-17.50

Elena Abad (Universitat Pompeu Fabra)
Dynamics of CD4 T cells activation in EAE mice model  pdf of presentation

17.50-18.10

Juliane Liepe (Imperial College London)
Moving towards understanding of leukocyte migration  pdf of presentation

 

Friday 26 July 2013

09.00-10.00

Benedict Seddon (MRC National Institute for Medical Research)
Selected but neglected: alternative fates for thymocytes undergoing positive selection in the thymus

10.00-11.00

Andrew Yates (Albert Einstein College of Medicine)
Life choices for T cells: decision-making and optimal strategies, from development to maturity

11.00-11.30

Coffee/Tea in the Chapterhouse

11.30-12.30

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

12.30

Close of workshop

 

Presentations:

Presentation Details
Abad, Elena
Dynamics of CD4 T cells activation in EAE mice model. POSTER: Interferon beta signalling in macrophages: phosphorylation of STAT1
View Abstract Down
Beltman, Joost
The role of subtle directed migration during immune responses
View Abstract Down
Best, Katharine
POSTER: Identifying immune response in the T cell receptor repertoire
Carter, Lisa
POSTER: High-throughput sequencing of the T-cell receptor repertoire
Chakraborty, Arup
How to hit HIV where it hurts
View Abstract Down
Coombs, Daniel
Branching process models for HIV and SIV infection
View Abstract Down
Cromer, Deborah
Estimating cytomegalovirus growth rates by using only a single point
View Abstract Down
Dalchau, Neil
Conformational change of MHC class I molecules is required for efficient antigen presentation
View Abstract Down
Davenport, Miles
Mechanisms of age-associated immunity to P. falciparum malaria
View Abstract Down
Delgado-Eckert, Edgar
POSTER: Saturation effects on T-cell activation in a model of a multi-stage pathogen
Duffy, Ken
Competition, censorship and cell fates
View Abstract Down
Dunn-Walters, Deborah
Human B cell repertoires: age challenges
View Abstract Down
Dushek, Omer
Systems model of T cell receptor proximal signalling reveals emergent ultrasensitivity
View Abstract Down
Evavold, Brian
Two dimensional affinity range of antigen specific regulatory T cells
View Abstract Down
Guzzetta, Giorgio
The role of ageing and immune memory in the outcome of Mycobacterium Tuberculosis infection
View Abstract Down
Hawkins, Edwin
Construction and application of the Cyton model of lymphocyte responses: quantitative analysis of fate regulation in lymphocytes
View Abstract Down
Hoare, Rollo
POSTER: A novel mechanistic model for CD4 lymphocyte reconstitution following paediatric haematopoietic stem cell transplantation
Höfer, Thomas
Inferring the program of T cell diversification from in-vivo fate mapping
View Abstract Down
Keane, Peter
POSTER: Promiscuous mRNA splicing under the control of AIRE in medullary thymic epithelial cells
Liepe, Juliane
Moving towards understanding of leukocyte migration
View Abstract Down
Lignet, Floriane
Mathematical modelling of in vivo CD8 T cells proliferation
View Abstract Down
López García, Martín
Extreme values in competition processes
View Abstract Down
Lythe, Grant
Stochastic dynamics and the adaptive immune system
View Abstract Down
Marino, Simeone
Hybrid computational models of granuloma formation during tuberculosis infection
View Abstract Down
Mayer, Hannah
A stochastic model for T-Cell activation
View Abstract Down
McEwan, Christopher
POSTER: Scaling quantitative models towards high-dimensional experimental observations
Molina-Paris, Carmen
Modelling immune processes at the molecular, cellular and population levels
View Abstract Down
Perié, Leila
Single cell tracing of hematopoiesis using cellular barcoding
View Abstract Down
Regoes, Roland
Lymph node colonization dynamics after oral Salmonella Typhimurium infection in mice
View Abstract Down
Savill, Nick
How maternally transferred immunity alters rodent malaria infection dynamics and protects against death
View Abstract Down
Seddon, Benedict
Selected but neglected - alternative fates for thymocytes undergoing positive selection in the thymus
View Abstract Down
Varma, Rajat
TCR microclusters as platforms for ligand discrimination
View Abstract Down
Weber, Tom
Flux analysis indicates G2 dependent immigration into the dark zone of germinal centers
View Abstract Down
Yates, Andrew
Life choices for T cells: decision-making and optimal strategies, from development to maturity
View Abstract Down
Zhu, Cheng
Antigen-specific TCR–pMHC catch bond enables force to trigger T cell signalling
View Abstract Down

Participants

Name Institution
Abad, Elena Universitat Pompeu Fabra
Abourashchi, Niloufar University of Leeds
Beltman, Joost Netherlands Cancer Institute
Best, Katharine University College London
Callard, Robin University College London
Carter, Lisa University College London
Chakraborty, Arup Massachusetts Institute of Technology
Coombs, Daniel University of British Columbia
Craddock, Laura Defence Science and Technology Laboratory
Cromer, Deborah University of New South Wales
Dalchau, Neil Microsoft Research
Davenport, Miles University of New South Wales
de la Higuera, Luis University of Granada
Delgado-Eckert, Edgar Universitäts-Kinderspital beider Basel
Duffy, Ken National University of Ireland, Maynooth
Dunn-Walters, Deborah King's College London School of Medicine
Dushek, Omer University of Oxford
Evavold, Brian Emory University
Guzzetta, Giorgio Trento Rise
Hawkins, Edwin Imperial College London
Hoare, Rollo University College London
Höfer, Thomas German Cancer Research Center
Hoffman, Fred University of Oxford
Keane, Peter National University of Ireland, Galway
Krishnan, Sheeja University of Leeds
Liepe, Juliane Imperial College London
Lignet, Floriane INRIA
López García, Martín Complutense University of Madrid
Lythe, Grant University of Leeds
Marino, Simeone University of Michigan Medical School
Mayer, Hannah University of Bonn
McEwan, Christopher Microsoft Research
Molina-Paris, Carmen University of Leeds
Perié, Leila Netherland Cancer Institute / Utrecht University
Reeve, Richard University of Glasgow
Regoes, Roland ETH Zurich
Reynolds, Joseph University of Leeds
Savill, Nick University of Edinburgh
Seddon, Benedict Institute for Immunity and Transplantation, UCL
Seoighe, Cathal National University of Ireland, Galway
Spencer, Phillippa Defence Science and Technology Laboratory
Varma, Rajat National Institutes of Health / NIAID
Weber, Tom National University of Ireland, Maynooth
Yates, Andrew Albert Einstein College of Medicine
You, Tao AstraZeneca UK Ltd
Zhu, Cheng Georgia Institute of Technology