Publications
Under Review
2025
L. Ham, M. Jackson, A. Sukys, M. P. H. Stumpf, Intercellular signaling drives robust cell fate and patterning in multicellular organisms, Preprint,bioRxiv:2025.10.09.681513.
Y. Liu, A. Zanca, M. P. H. Stumpf, L. Ham, Molecular nosie modulates transitions in the cell-fate differentiation landscape, Preprint,bioRxiv:2025.07.28.667061.
L. Ham and M. Jackson, Finite model theory for pseudovarieties and universal algebra: preservation, definability and complexity,Preprint, arXiv:2212.02653.
Refereed Journal Publications and Conference Proceedings
2025
C. D. Madsen, A. Barbensi, S. Y. Zhang, L. Ham, A. David, D. E. V. Pires, M. P. H. Stumpf, The Topological Properties of the Protein Universe, Nature Communications (to appear), bioRxiv:2023.09.25.559443.
2024
L. Ham, T. Woodward, M. A. Coomer, M. P. H. Stumpf, Mapping, modeling, and reprogramming cell-fate decision-making systems, Annual Review of Biomedical Data Science (to appear) arXiv::2412.00667.
L. Ham, M. A. Coomer, K. Ocal, R. Grima, M. P. H. Stumpf, A stochastic vs deterministic perspective on the timing of cellular events, Nature Communications, 15, 5286.
2022
L. Ham*, M. A. Coomer*, M. P. H. Stumpf, The chemical Langevin equation for biochemical systems in dynamic environments, Journal of Chemical Physics, 157 (9), 094105. (*Joint first authorship)
M. A. Coomer*, L. Ham*, M. P. H. Stumpf, Noise distorts the epigenetic landscape and shapes cell-fate decisions, Cell Systems, 13(1), 83-102.
2021
L. Ham, M. Jackson, M. P. H. Stumpf, Pathway dynamics can delineate the sources of transcriptional noise in gene expression, eLife, 10, e69324.
2020
L. Ham, D. Schnoerr, R. D. Brackston, M. P. H. Stumpf, Exactly solvable models of gene transcription, The Journal of Chemical Physics, 152, 144106.
L. Ham*, R. D. Brackston*, M. P. H. Stumpf, Extrinsic noise and heavy-tailed laws in gene expression, Physical Review Letters, 124, 108101.
2018
L. Ham, M. Jackson, Axiomatisability, preservation and hardness for hypergraph quasivarieties, Algebra Universalis, 79 (2), 1-17.
2017
L. Ham, M. Jackson, All or Nothing: toward a promise problem dichotomy for constraint problems, Principles and Practice of Constraint Programming (CP 2017), Lecture Notes in Computer Science, 10416, 139-156.
L. Ham, Gap theorems for robust satisfiability: Boolean CSPs and beyond, Theoretical Computer Science, 676, 69-91.
L. Ham, Relativised homomorphism preservation at the finite level, Studia Logica, 105, 761-786.
2016
L. Ham, A gap trichotomy for Boolean constraint problems: extending Schaefer’s Theorem, 27th International Symposium on Algorithms and Computation (ISAAC 2016), 36:1-36:12.
PhD Thesis
Definability and complexity: Universal Horn classes of finite structures Supervisors: Prof Brian Davey and Prof Tomasz Kowalski