Jonathan Dawes
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View article: Oscillatory differentiation dynamics fundamentally restricts the resolution of pseudotime reconstruction algorithms
Oscillatory differentiation dynamics fundamentally restricts the resolution of pseudotime reconstruction algorithms Open
The challenge to understand differentiation and cell lineages in development has resulted in many bioinformatics software tools, notably those working with gene expression data obtained via single-cell RNA sequencing obtained at snapshots …
View article: Minimal reaction schemes for pattern formation
Minimal reaction schemes for pattern formation Open
We link continuum models of reaction–diffusion systems that exhibit diffusion-driven instability to constraints on the particle-scale interactions underpinning this instability. While innumerable biological, chemical and physical patterns …
View article: Zebrafish pigment cells develop directly from persistent highly multipotent progenitors
Zebrafish pigment cells develop directly from persistent highly multipotent progenitors Open
Neural crest cells are highly multipotent stem cells, but it remains unclear how their fate restriction to specific fates occurs. The direct fate restriction model hypothesises that migrating cells maintain full multipotency, whilst progre…
View article: Network Science Tools Reveal System-Level Properties of SDG Interlinkage Networks
Network Science Tools Reveal System-Level Properties of SDG Interlinkage Networks Open
A growing literature constructs SDG interlinkage networks in order to understand the interplay between goals, co-benefits, and trade-offs present in Agenda 2030. Networks are constructed from a variety of sources including historical corre…
View article: Cell Fate Decisions in the Neural Crest, from Pigment Cell to Neural Development
Cell Fate Decisions in the Neural Crest, from Pigment Cell to Neural Development Open
The neural crest shows an astonishing multipotency, generating multiple neural derivatives, but also pigment cells, skeletogenic and other cell types. The question of how this process is controlled has been the subject of an ongoing debate…
View article: Cyclical fate restriction: a new view of neural crest cell fate specification
Cyclical fate restriction: a new view of neural crest cell fate specification Open
Neural crest cells are crucial in development, not least because of their remarkable multipotency. Early findings stimulated two hypotheses for how fate specification and commitment from fully multipotent neural crest cells might occur, pr…
View article: Novel generic models for differentiating stem cells reveal oscillatory mechanisms
Novel generic models for differentiating stem cells reveal oscillatory mechanisms Open
Understanding cell fate selection remains a central challenge in developmental biology. We present a class of simple yet biologically motivated mathematical models for cell differentiation that generically generate oscillations and hence s…
View article: SDG interlinkage networks: Analysis, robustness, sensitivities, and hierarchies
SDG interlinkage networks: Analysis, robustness, sensitivities, and hierarchies Open
A growing literature considers the Sustainable Development Goals (SDGs) as a interlinked network, connected by co-benefits and trade-offs between pairs of SDGs. Such network descriptions naturally prompt important questions concerning the …
View article: Zebrafish pigment cells develop directly from persistent highly multipotent progenitors
Zebrafish pigment cells develop directly from persistent highly multipotent progenitors Open
Neural crest cells (NCCs) are highly multipotent stem cells. A long-standing controversy exists over the mechanism of NCC fate specification, specifically regarding the presence and potency of intermediate progenitors. The direct fate rest…
View article: Novel Generic Models for Differentiating Stem Cells Reveal Oscillatory\n Mechanisms
Novel Generic Models for Differentiating Stem Cells Reveal Oscillatory\n Mechanisms Open
Understanding cell fate selection remains a central challenge in\ndevelopmental biology. We present a class of simple yet biologically-motivated\nmathematical models for cell differentiation that generically generate\noscillations and henc…
View article: Hydroinformatics education – the Water Informatics in Science and Engineering (WISE) Centre for Doctoral Training
Hydroinformatics education – the Water Informatics in Science and Engineering (WISE) Centre for Doctoral Training Open
The Water Informatics in Science and Engineering Centre for Doctoral Training (WISE CDT) offers a postgraduate programme that fosters enhanced levels of innovation and collaboration by training a cohort of engineers and scientists at the b…
View article: Using Echo State Networks to Approximate Value Functions for Control
Using Echo State Networks to Approximate Value Functions for Control Open
An Echo State Network (ESN) is a type of single-layer recurrent neural network with randomly-chosen internal weights and a trainable output layer. We prove under mild conditions that a sufficiently large Echo State Network can approximate …
View article: Echo State Networks for Reinforcement Learning.
Echo State Networks for Reinforcement Learning. Open
Echo State Networks (ESNs) are a type of single-layer recurrent neural network with randomly-chosen internal weights and a trainable output layer. We prove under mild conditions that a sufficiently large Echo State Network (ESN) can approx…
View article: How close is the nearest node in a wireless network?
How close is the nearest node in a wireless network? Open
The ability of small-cell wireless networks to self-organize is crucial for improving capacity and performance in modern communication networks. This paper considers one of the most basic questions: what is the expected distance to a cell’…
View article: Hydroinformatics education – The Water Informatics in Science and Engineering (WISE) Centre for Doctoral Training
Hydroinformatics education – The Water Informatics in Science and Engineering (WISE) Centre for Doctoral Training Open
The Water Informatics in Science and Engineering Centre for Doctoral Training (WISE CDT) offers a postgraduate programme that fosters enhanced levels of innovation and collaboration by training a cohort of engineers and scientists at the b…
View article: Forecasting resilience profiles of the run-up to regime shifts in nearly-one-dimensional systems
Forecasting resilience profiles of the run-up to regime shifts in nearly-one-dimensional systems Open
The forecasting of sudden, irreversible shifts in natural systems is a challenge of great importance, whose realization could allow pre-emptive action to be taken to avoid or mitigate catastrophic transitions, or to help systems adapt to t…
View article: Are the Sustainable Development Goals self‐consistent and mutually achievable?
Are the Sustainable Development Goals self‐consistent and mutually achievable? Open
On September 18, 2015, the United Nations General Assembly adopted the 2030 Agenda for Sustainable Development, which sets out wide‐ranging ambitions for global development. In response to the 2030 Agenda, the International Council for Sci…
View article: Demographic noise slows down cycles of dominance
Demographic noise slows down cycles of dominance Open
We study the phenomenon of cyclic dominance in the paradigmatic Rock--Paper--Scissors model, as occurring in both stochastic individual-based models of finite populations and in the deterministic replicator equations. The mean-field replic…
View article: A phase-plane analysis of localized frictional waves
A phase-plane analysis of localized frictional waves Open
Sliding frictional interfaces at a range of length scales are observed to generate travelling waves; these are considered relevant, for example, to both earthquake ground surface movements and the performance of mechanical brakes and dampe…
View article: Supplementary material from "A phase-plane analysis of localized frictional waves"
Supplementary material from "A phase-plane analysis of localized frictional waves" Open
Sliding frictional interfaces at a range of length scales are observed to generate travelling waves; these are considered relevant, for example, to both earthquake ground surface movements and the performance of mechanical brakes and dampe…
View article: Is Preferential Attachment the 2nd Law of Thermodynamics in Disguise
Is Preferential Attachment the 2nd Law of Thermodynamics in Disguise Open
Barabasi-Albert's `Scale Free' model is the accepted theory of the evolution of real world networks. Careful comparison of the theory with a wide range of real world graphs, however, has identified shortcomings in the predictions of the th…