Publications in
chronological order
1. S. Benford,T. Rodden, M. Calder, M. Sevegnani.
On lions, impala, and bigraphs: modelling interactions in physical/virtual
spaces.
ACM Transactions on Computer-Human
Interaction, in press.
2. O. Andrei, M. Calder, M. Chalmers, A. Morrison, M. Rost.
Probabilistic Formal Analysis of App Usage to Inform Redesign.
Proceedings 12th International Conference on
Integrated Formal Methods, iFM 2016, Lecture Notes in Computer Science, in
press.
3. M. Sevegnani, M. Calder.
Bigraphs with sharing.
Theoretical Computer Science, vol. 577, pp
43--74, Elsevier, 2015. Online copy http://www.sciencedirect.com/science/article/pii/S0304397515001085
4. M. Calder.
What makes a good science policy?
fst journal, Foundation
for Science and Technology, volume 21(5), March 2015.
5. O. Andrei, M. Calder, M. Higgs, M. Girolami.
Probabilistic Model Checking of DTMC Models of User Activity Patterns
Proceedings QEST 2014, Lecture Notes in Computer
Science, vol. 8657, pp. 138--153, 2014.
6. M. Calder, M. Sevegnani.
Do I need to fix a failed component now, or can I wait until tomorrow?
EDCC (Tenth European Dependable Computing
Conference), IEEE, 2014.
7.
A. Degasperi, M. Calder.
A Process Algebra Framework for Multi-Scale Modelling of Biological Systems.
Theoretical Computer Science, Elsevier, vol.
488, pp. 15--45, 2013. http://dx.doi.org/10.1016/j.tcs.2013.03.018
8. M. Calder, A. Koliousis, M.
Sevegnani, J. Sventek.
Real-time verification of wireless home networks using bigraphs
with sharing.
Science of Computer Programming, volume 80,
part B, Feb., pp. 288--310, 2014. Online copy at http:/www.sciencedirect.com/science/article/pii/S0167642313001974.
9. M. Calder, M. Sevegnani.
Modelling IEEE 802.11 CSMA/CA RTS/CTS with stochastic bigraphs
with sharing.
Formal Aspects of Computer Science, vol. 26,
issue 3, pp. 537--561,Springer, doi:10.1007/s00165-012-0270-3,
2014.
10. M. Calder, P. Gray, C. Unsworth.
Is my configuration any good: checking usability in an interactive sensor-based
activity monitor.
Innovations in System and Software
Engineering, volume 11, issue 2, pp. 131--142 Springer, doi:10.1007/s11334-013-0203-1, 2015.
11. M. Calder, R. Donaldson.
Modular modelling of signalling pathways and their crosstalk.
Theoretical Computer Science, Volume 456, pp.
30-50, October 2012.http://dx.doi.org/10.1016/j.tcs.2012.07.003
12. O. Andrei, M. Calder.
Trend-based Analysis of a Population Model of the AKAP Scaffold Protein.
Transactions on Computational Systems
Biology XIV, LNBI vol. 7625,
pp. 1--25, Springer, 2012.
13. M. Calder, M. Sevegnani.
Process algebra for event-driven runtime verification: a case study of wireless
network managment.
Proceedings 9th International
Conference on Integrated Formal Methods, IFM 2012, Pisa, Italy, Lecture Notes
in Computer Science, volume 7321, pp 21-23, 2012.
14. A. Degasperi, M. Calder.
Multi-Scale Modelling of Biological Systems in Process Algebra with Multi-way
Synchronisation.
Proceedings 9th International
CMSB 2011 (International Computational Systems Biology), Paris, France.
978-1-4503-0817-5, 2011.
15.
R.
Donaldson, C. Talcott, M. Knapp, M. Calder.
Understanding Signalling Networks as
Collections of Signal Transduction Pathways
Proceedings of
8th International CMSB (Computational Methods in Systems Biology), ACM, 2010. http://portal.acm.org/citation.cfm?id=1839764\&picked=prox2010.
16. M. Calder, P. Gray, A. Miller and
C. Unsworth.
An introduction to Pervasive Interface Automata
Proceedings
of 7th International FACS (Formal Aspects of Component Software). LNCS vol. 6921, pp.71-87,
2011.
17.
O. Andrei
and M. Calder.
A model and Analysis of the AKAP Scaffold.
CS2Bio2010, ENTCS 268,
pages 3-15, Elsevier, 2010.
18.
M. Calder, O.
Andrei, A. Degasperi and R. Donaldson.
From species
to pathway and tissue as process
Proceedings of 8th International CMSB (Computational Methods in
Systems Biology), ACM, 2010. http://portal.acm.org/citation.cfm?id=1839764\&picked=prox2010.
19.
A. Degasperi, M. Calder.
Process
Algebra with Hooks for Models of Pattern Formation.
CS2Bio2010, ENTCS 268, pages 31-47, Elsevier, 2010
20. A. Degasperi, M. Calder.
Relating
PDEs in Cylindrical Coordinates and CTMCs with Levels of Concentration.
CS2Bio2010,
ENTCS 268, pages
49-59, Elsevier, 2010.
21. R. Donaldson, M. Calder.
Modelling and and Analysis of Biochemical Signalling
Pathway Crosstalk.
FBTC 2010, ENTCS 118, pp. 01-15, Elsevier, 2010.
22. M. Sevegnani, M. Calder.
Bigraphs with sharing
DCS Technical Report Series, University of
Glasgow, TR-2010-310, 2010.
23. M. Sevegnani, C. Unsworth, M. Calder.
A SAT based algorithm for the matching problem in biraphs
with sharing
DCS Technical Report Series, University of
Glasgow, TR-2010-311, 2010.
24.
M. Calder, J.
Hillston.
Process algebra modelling styles for biomolecular processes.
Transactions on Computational Systems
Biology XI, LNBI 5750,
pp.1-25, Springer, 2009.
25.
M. Calder, P.
Gray and C. Unsworth
Tightly coupled verification of pervasive systems
Proceedings of the Third International
Workshop on Formal Methods for Interactive Systems (FMIS 2009) Electronic Communications of the
EASST, volume X, 2009.
26.
M. Calder, S.
Gilmore, J. Hillston and V. Vyshemirsky
Formal methods for biochemical signalling pathways
Formal Methods: State of the Art and New Directions, Springer, 2009.
27.
A. Miller and M. Calder.
An automatic abstraction technique for verifying featured, parameterised
systems
Theoretical Computer Science, 404, pp. 235-255, 2008.
28.
F. Ciochetta, A. Degasperi, J. Hillston, M.
Calder.
Some investigations concerning the CTMC and the ODE model derived from
Bio-PEPA
Proceedings
of FBTC 2008, ENTCS vol. 17350,
Elsevier, 2008.
29.
M. Calder, S.
Gilmore (Editors)
Computational Methods for Systems Biology
Theoretical
Computer Science, volume 408, Elsevier, 2008.
30.
D. Graham, M.
Calder, and A Miller
An Inductive Technique for Parameterised Model Checking of Degenerative
Distributed Randomised Protocols
Proceedings of AVOCS 07 (Automated Verification of Critical Systems), ENTCS
vol. 250, pp.87-103, Elsevier 2009.
31.
M. Calder, S.
Gilmore (Editors)
Computational Methods for Systems Biology Lecture Notes in Bioinformatics,
volume 4695, Springer, 2007.
32. M. Calder, S. Gilmore and J. Hillston
Modelling the influence of RKIP on the ERK signalling pathway using the
stochastic process algebra PEPA
Transactions on Computational Systems Biology VII, vol. 4230, pp. 1-23,
Springer, 2006.
33.
A. Miller, A. Donaldson
and M. Calder
Symmetry in temporal logic model checking
Computing Surveys, ACM ,vol. 38, issue 3,pp. 1-36, 2006.
34.
A. Miller, M.
Calder and A. Donaldson
A template-based approach for the generation of abstractable
and reducible models of featured networks
Computer Networks, vol. 51(2), pp. 439-455, Elsevier, 2007.
35.
M. Calder, A. Duguid, S. Gilmore and J. Hillston.
Stronger computational modelling of signalling pathways using both continuous
and discrete-space methods
Computational Methods in Systems Biology (CMSB 2006), LNBI vol. 421,
pp. 63-78, 2006.
36.
M. Calder, V. Vyshemirsky, D. Gilbert, and R. Orton.
Analysis of Signalling Pathways using Continuous Time Markov Chains
Transactions on Computational Systems Biology VI, vol. 4220, pp. 44-67,
Springer, 2006.
37.
M. Calder and
A. Miller
Feature
Interaction Detection by Pairwise Analysis of LTL Properties--a case study
Formal Methods in System Design, Volume 28(30), pp. 213-261, May 2006.
38.
M. Calder and
J. Hillston
What do scaffold proteins really do?
Fifth Workshop on Process Algebra and Stochastically Timed Activities
(PASTA 2006), Imperial College, 2006.
39.
A. Miller and M. Calder.
A generic approach for the automatic verification of featured, parameterised
systems
Proceedings of Eighth International Conference on Feature Interactions
in Telecommunications and Software Systems (ICFI '05) , pp 217-235, IOS Press,
2005.
40.
M. Calder, S.
Gilmore and J. Hillston.
Automatically deriving ODEs from process algebra models of signalling
pathways
Proceedings of CMSB 2005 (Computational Methods in Systems Biology), pp 204-215, 2005.
41.
M. Calder, V. Vyshemirsky, D. Gilbert and R. Orton.
Analysis of Signalling Pathways using the Prism Model
Checker
Proceedings of CMSB 2005 (Computational Methods in Systems Biology), pp 179-190, 2005.
42.
W. Kolch, M. Calder and D. Gilbert.
When kinases meet mathematics: the systems biology of MAPK signalling
FEBS Letters, vol. 579, pp 1891--1895, 2005.
43.
R. Orton, O.
Sturm, V. Vyshemirsky, M. Calder, D. Gilbert and W. Kolch.
Computational Modelling of the Receptor Tyrosine Kinase Activated MAPK
Pathway
Biochemical Journal, vol. 392, pp 249--261, 2005.
44.
M. Calder, S.
Gilmore and J. Hillston.
Modelling the influence of RKIP on the ERK signalling
pathway using the stochastic process algebra PEPA
Proceedings of Bio-CONCUR 2004, Electronic Notes in Theoretical
Computer Science, 2004.
45.
A. Donaldson,
A. Miller and M. Calder.
Finding symmetry in models of concurrent systems by static channel diagram
analysis
Electronic Notes in Theoretical Computer Science, vol. 128/6, pp
161-177, Elsevier, 2004.
46. M Calder and A. Miller.
Verifying parameterised, featured networks by abstraction
Proceedings
of the first International Symposium on Leveraging Applications of Formal Methods
(ISOLA'04),
pp 227--234.
47. M Calder and A. Miller.
Detecting
Feature Interactions: how many components do we need?
Objects, Agents and Features. Lecture Notes in Computing Science, vol.
2975, pp 45-66, 2004.
48.
P.Saffrey and M. Calder.
Optimising
Communications Structure for Model Checking Lecture Notes in Computer Science,
Proceedings of FASE 2004, Lecture Notes in Computer Science, vol. 2984,
pp 310-3224, Springer Verlag, 2004.
49. A.Miller and M Calder.
An
application of abstraction and induction techniques to degenerating systems of
processes.
Proceedings of the International Workshop on Model-Checking for
Dependable Software Intensive Systems (MCDSIS '03), IEEE Computer Society
Press, 2003.
50. M Calder, M. Kolberg
E. Magill, D. Marples and S. Reiff-Marganiec.
Hybrid
Solutions to the Feature Interaction Problem
Feature Interactions in Telecommunications and Software Systems VII,
IOS Press. pp.187-205, 2003.
51. M Calder and A. Miller
Generalising Feature Interactions in Email
Feature Interactions in Telecommunications and Software Systems VII,
IOS Press. pp. 295-217, 2003.
52. M Calder, E. Magill, M. Kolberg,
and S. Reiff-Marganiec.
Feature
Interaction: A Critical Review and Considered Forecast.
Computer Networks, Volume
41/1, pp. 115-141, North-Holland. January 2003.
53. M. Calder and A. Miller.
Using SPIN to
Analyse the FireWire Protocol -- a Case Study.
Formal Aspects of Computer Science, vol. 14, no. 3, pp. 247266,
Springer Verlag, 2003.
54. M. Calder and A. Miller.
Automated
verification of any number of concurrent, communicating processes.
Proceedings of 17th IEEE Automated Software Engineering (ASE 2002), pp. 227-230, IEEE, 2002.
55. M. Calder and A. Miller.
Five
ways to use symmetry and induction in the verification of networks of processes
using model-checking.
Proceedings of Automated Verification of Critical Systems (AVoCS),2002.
56.
M. Calder, S. Maharaj, and C. Shankland.
A Modal Logic for
Full LOTOS based on Symbolic Transition Systems.
The Computer Journal, Volume 45, No.1, pp. 55--61, 2002.
57. M. Calder and A. Miller.
Using
SPIN for Feature Interaction: Analysis -- a Case Study.
Proceedings of the 8th International SPIN Workshop (SPIN 2001),
Toronto, Canada, Lecture Notes in Computer Science, Volume 2057,
pp. 143--162, 2001.
58. M. Calder and A. Miller.
Using
the Model Checker SPIN to Detect Feature Interactions in Telecommunications
Services.
University of Glasgow, Computing Science Technical Report TR-2001-91. 2001.
59. M. Calder, S. Maharaj,
and C. Shankland.
An
Adequate Logic for Full LOTOS.
Proceedings of FME 2001, Lecture Notes in Computer Science.
vol. 2021, pp.384-395, 2001.
60. M. Calder and C. Shankland.
A Symbolic
Semantics and Bisimulation for Full LOTOS.
Proceedings of FORTE 2001, 21st International Conference on Formal
Techniques for Networked and Distributed Systems, Korea, 2001. M.Kim, B.Chin, S.Kang and D.Lee (Eds.), pp.
184--200, Kluwer Academic Publishers, 2001.
61. M Calder, E. Magill, S. Reiff-Marganiec,
and V. Thayananthan.
Theory
and Practice of Enhancing a Legacy Software System.
Systems Engineering for Business Process Change (volume 2), P.Henderson
(ed.) Springer-Verlag, 2001.
62. M. Calder and S. Reiff.
Modelling
Legacy Telecommunications Switching Systems for Interaction Analysis.
Systems Engineering for Business Process Change, P. Henderson (ed.), pp.
182-195, Springer-Verlag, 2000.
63. M. Calder and E. Magill, Editors.
Feature Interactions in Telecommunications and Software Systems VI.
IOS Press, 2000.
64. M. Calder, E. Magill and D. Marples.
A Hybrid
Approach to Software Interworking Problems: Managing Interactions between
Legacy and Evolving Telecommunications Software.
IEE Proceedings - Software, Vol. 146, No. 3, June 1999.
Abstract only in electronic form, please contact the authors for a hard copy of
the full paper.
65. M. Calder and C. Shankland.
A Symbolic
Semantics and Bisimulation for Full LOTOS.
University of Glasgow, Computing Science Technical Report TR-2001-77.
66.
M. Calder.
What Use are
Formal Analysis and Design Methods to Telecommunications Services?
In Feature Interactions in Telecommunications and Software Systems, pp.
23-31, IOS Press, 1998.
67. M. Thomas.
Modelling and Analysing User Views of Telecommunications Services.
In Feature Interactions in Telecommunications Systems, pp.
168-183, IOS Press, 1997.
68. P. Jeffcutt and M.
Thomas.
Organisation,
Information and Computation.
ORGANIZATION, 5/3, pp. 397-423, August 1998.
69. M. Calder and A. Miller.
Analysing a Basic Call Protocol using PROMELA/XSPIN.
Proceedings SPIN '98: Workshop on Automata Theoretic Verification with
the SPIN model Checker, pp. 169-181, Paris, G. Holzmann, Ed., 1998.
70. C. Shankland and M. Thomas.
Symbolic Bisimulations for Full LOTOS.
In Lecture Notes in Computer Science vol. 1349, pp. 479-493,
Springer-Verlag, 1997.
71. S. Aitken, P. Gray, T. Melham, and M. Thomas.
A Study of User Activity in Interactive Theorem
Proving.
Journal of Symbolic Computation, vol. 25, no. 2, pp.
263-284, February 1998.
72.
M. Thomas.
Formal Methods and
their Role in Developing Safe Systems.
High Integrity Systems Journal, Volume 1, Number 5,
Oxford University Press, pp. 447-451, 1996.
73.
C. Kirkwood and M. Thomas.
Experiences
with LOTOS: A Report on Two Case Studies.
Proceedings of WIFT '95 159-172, pp. IEEE Computer
Society Press, 1995.
74.
M. Thomas and
B. Ormsby.
On the Design of Side-Stick Controllers in Fly-By-Wire Aircraft.
ACM Applied Computing Review , Volume 2, Number 1, Spring 1994.
75.
U. Martin and
M. Thomas.
Verification
Techniques for LOTOS.
Proceedings of Formal Methods Europe '94, Lecture Notes in Computer Science,
Volume 873, Springer Verlag, 1994.
76. M. Thomas.
The Story of the
Therac-25 in LOTOS.
High Integrity Systems Journal, Volume 1, Number 1,
Oxford University Press, pp. 3-17, 1994.
77.
M. Thomas.
A Proof of
Incorrectness using LP: the Editing Problem from the Therac-25.
High Integrity Systems Journal, Volume 1, Number 1,
Oxford University Press, pp. 35-49, 1994.
84.
M. Thomas and K. Jantke
Inductive
Inference for Knuth Bendix Completion
Lecture Notes in Computer Science vol. 397 288-303,
Springer Verlag, 1989.