All Stories

  1. Label-free biochemical imaging and time point analysis of neural organoids via deep learning–enhanced Raman microspectroscopy

    Article • Science Advances, August 2026, American Association for the Advancement of Science

    Mauricio Barahona

  2. Predicting trajectories of illness using RNA velocity of whole blood

    Article • Nature Communications, May 2026, Springer Science + Business Media

    Mauricio Barahona

  3. ‘What Do People With Long Covid Want From Healthcare Services?’ A Qualitative Exploration From Lived Experience

    Article • Health Expectations, February 2026, Wiley

    Mauricio Barahona

  4. Synergy mediates long-range correlations in the visual cortex near criticality

    Article • Frontiers in Computational Neuroscience, February 2026, Frontiers

    Mauricio Barahona

  5. The exit of naive pluripotency contains a metabolism-induced checkpoint for telomere homeostasis

    Article • Cell Reports, December 2025, Elsevier

    Mauricio Barahona

  6. Synergy mediates Long-Range Correlations in the Visual Cortex Near Criticality

    Article • November 2025, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  7. Integrating protein sequence embeddings with structure via graph-based deep learning for single-residue property prediction

    Article • November 2025, Springer Science + Business Media

    Mauricio Barahona

  8. Falling asleep follows a predictable bifurcation dynamic

    Article • Nature Neuroscience, October 2025, Springer Science + Business Media

    Mauricio Barahona

  9. Key factors behind the adoption of a patient-facing technology in primary care: a structured approach to variable importance

    Article • Health Services and Outcomes Research Methodology, October 2025, Springer Science + Business Media

    Mauricio Barahona

  10. Label-free biochemical imaging and timepoint analysis of neural organoids via deep learning-enhanced Raman microspectroscopy

    Article • September 2025, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  11. Mode Visualization and Control of Complex Lasers Using Neural Networks

    Article • ACS Photonics, September 2025, American Chemical Society (ACS)

    Mauricio Barahona

  12. Digitalization of Access to Primary Care: Is There an Equity‐Efficiency Trade‐Off?

    Article • Health Economics, July 2025, Wiley

    Mauricio Barahona

  13. Rethinking health services around clusters of co-existing diseases: impact on integrated care for people with Multiple Long-Term Conditions

    Article • May 2025, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  14. Single-Mode Emission by Phase-Delayed Coupling Between Nanolasers

    Article • ACS Photonics, May 2025, American Chemical Society (ACS)

    Mauricio Barahona

  15. Moment-based parameter inference with error guarantees for stochastic reaction networks

    Article • The Journal of Chemical Physics, April 2025, American Institute of Physics

    Mauricio Barahona

  16. MARBLE: interpretable representations of neural population dynamics using geometric deep learning

    Article • Nature Chemical Biology, February 2025, Springer Science + Business Media

    Mauricio Barahona

  17. Patterns of co-occurrent skills in UK job adverts

    Article • PLOS Complex Systems, February 2025, PLOS

    Mauricio Barahona

  18. Predicting trajectories of acute illness using RNA velocity of whole blood

    Article • February 2025, Springer Science + Business Media

    Mauricio Barahona

  19. Daily stress and worry are additional triggers of symptom fluctuations in individuals living with Long COVID: results from an intensive longitudinal cohort study

    Article • Annals of Behavioral Medicine, January 2025, Oxford University Press (OUP)

    Mauricio Barahona

  20. ANTIPASTI: Interpretable prediction of antibody binding affinity exploiting normal modes and deep learning

    Article • Structure, December 2024, Elsevier

    Mauricio Barahona

  21. Transformer-based deep learning model for the diagnosis of suspected lung cancer in primary care based on electronic health record data

    Article • EBioMedicine, December 2024, Elsevier

    Mauricio Barahona

  22. Physical, cognitive, and social triggers of symptom fluctuations in people living with long COVID: an intensive longitudinal cohort study

    Article • The Lancet Regional Health - Europe, November 2024, Elsevier

    Mauricio Barahona

  23. Hyperspectral unmixing for Raman spectroscopy via physics-constrained autoencoders

    Article • Proceedings of the National Academy of Sciences, October 2024, Proceedings of the National Academy of Sciences

    Mauricio Barahona

  24. Achieving integrated care through clusters of co-occurring diseases for people with multimorbidity

    Article • European Journal of Public Health, October 2024, Oxford University Press (OUP)

    Mauricio Barahona

  25. Associations between general practice and outpatient care continuity in people with multimorbidity

    Article • European Journal of Public Health, October 2024, Oxford University Press (OUP)

    Mauricio Barahona

  26. A Continuous Structural Intervention Distance to Compare Causal Graphs

    Article • October 2024, Springer Science + Business Media

    Mauricio Barahona

  27. Platinum(II)‐Salphen Complexes as DNA Binders and Photosensitisers

    Article • Chemistry - A European Journal, October 2024, Wiley

    Mauricio Barahona

  28. Designed Semiconductor Network Random Lasers

    Article • Laser & Photonics Review, August 2024, Wiley

    Mauricio Barahona

  29. Transformer-based deep learning model for the diagnosis of suspected lung cancer in primary care based on electronic health record data

    Article • July 2024, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  30. Algorithm 1044: PyGenStability, a Multiscale Community Detection Framework with Generalized Markov Stability

    Article • ACM Transactions on Mathematical Software, June 2024, ACM (Association for Computing Machinery)

    Mauricio Barahona

  31. The neuron mixer and its impact on human brain dynamics

    Article • Cell Reports, June 2024, Elsevier

    Mauricio Barahona

  32. Identifying multi-resolution clusters of diseases in ten million patients with multimorbidity in primary care in England

    Article • Communications Medicine, May 2024, Springer Science + Business Media

    Mauricio Barahona

  33. RamanSPy: An Open-Source Python Package for Integrative Raman Spectroscopy Data Analysis

    Article • Analytical Chemistry, May 2024, American Chemical Society (ACS)

    Mauricio Barahona

  34. Comparing natural language processing representations of coded disease sequences for prediction in electronic health records

    Article • Journal of the American Medical Informatics Association, May 2024, Oxford University Press (OUP)

    Mauricio Barahona

  35. Psychometric analysis of the modified COVID-19 Yorkshire Rehabilitation Scale (C19-YRSm) in a prospective multicentre study

    Article • BMJ Open Respiratory Research, May 2024, BMJ

    Mauricio Barahona

  36. Effect of timeframes to define long term conditions and sociodemographic factors on prevalence of multimorbidity using disease code frequency in primary care electronic health records: retrospective study

    Article • BMJ Medicine, February 2024, BMJ

    Mauricio Barahona

  37. Allosteric communication and signal transduction in proteins

    Article • Current Opinion in Structural Biology, February 2024, Elsevier

    Mauricio Barahona

  38. Integrated Analysis of Patient Networks and Plasmid Genomes to Investigate a Regional, Multispecies Outbreak of Carbapenemase-Producing Enterobacterales Carrying Both blaIMP and mcr-9 Genes

    Article • The Journal of Infectious Diseases, January 2024, Oxford University Press (OUP)

    Mauricio Barahona

  39. Automation risk and subjective wellbeing in the UK

    Article • January 2024, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  40. Assigning disease clusters to people: A cohort study of the implications for understanding health outcomes in people with multiple long-term conditions

    Article • Journal of Multimorbidity and Comorbidity, January 2024, SAGE Publications

    Mauricio Barahona

  41. ANTIPASTI: interpretable prediction of antibody binding affinity exploiting Normal Modes and Deep Learning

    Article • December 2023, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  42. Kernel-Based Independence Tests for Causal Structure Learning on Functional Data

    Article • Entropy, November 2023, MDPI AG

    Mauricio Barahona

  43. Comparing natural language processing representations of disease sequences for prediction in the electronic healthcare record

    Article • November 2023, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  44. Kernel-based joint independence tests for multivariate stationary and non-stationary time series

    Article • Royal Society Open Science, November 2023, Royal Society Publishing

    Mauricio Barahona

  45. Kernel-Based Independence Tests for Causal Structure Learning on Functional Data

    Article • October 2023, MDPI AG

    Mauricio Barahona

  46. Multiscale mobility patterns and the restriction of human movement

    Article • Royal Society Open Science, October 2023, Royal Society Publishing

    Mauricio Barahona

  47. Identifying potential biases in code sequences in primary care electronic healthcare records: a retrospective cohort study of the determinants of code frequency

    Article • BMJ Open, September 2023, BMJ

    Mauricio Barahona

  48. Long- and short-term history effects in a spiking network model of statistical learning

    Article • Scientific Reports, August 2023, Springer Science + Business Media

    Mauricio Barahona

  49. RamanSPy: An open-source Python package for integrative Raman spectroscopy data analysis

    Article • July 2023, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  50. Identifying multi-resolution clusters of diseases in ten million patients with multimorbidity in primary care in England

    Article • June 2023, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  51. Interpretable statistical representations of neural population dynamics and geometry

    Article • June 2023, Springer Science + Business Media

    Mauricio Barahona

  52. RECONSTRUCTING AND PREDICTING THE SPATIAL EVOLUTION OF CARBAPENEMASE-PRODUCING ENTEROBACTERIACEAE OUTBREAKS

    Article • International Journal of Infectious Diseases, May 2023, Elsevier

    Mauricio Barahona

  53. SPATIAL-TEMPORAL DETERMINANTS OF MDRO TRANSMISSION DYNAMICS: IMPLICATIONS FOR INFECTION CONTROL

    Article • International Journal of Infectious Diseases, May 2023, Elsevier

    Mauricio Barahona

  54. BART-based inference for Poisson processes

    Article • Computational Statistics & Data Analysis, April 2023, Elsevier

    Mauricio Barahona

  55. The neuron mixer and its impact on human brain dynamics

    Article • January 2023, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  56. Finding positively invariant sets and proving exponential stability of limit cycles using Sum-of-Squares decompositions

    Article • Journal of Computational Dynamics, January 2023, American Institute of Mathematical Sciences (AIMS)

    Mauricio Barahona

  57. Sensitivity and spectral control of network lasers

    Article • Nature Communications, October 2022, Springer Science + Business Media

    Mauricio Barahona

  58. Allosteric Hotspots in the Main Protease of SARS-CoV-2

    Article • Journal of Molecular Biology, September 2022, Elsevier

    Mauricio Barahona

  59. Prediction of Protein Allosteric Signalling Pathways and Functional Residues Through Paths of Optimised Propensity

    Article • Journal of Molecular Biology, September 2022, Elsevier

    Mauricio Barahona

  60. Prediction of hospital-onset COVID-19 infections using dynamic networks of patient contact: an international retrospective cohort study

    Article • The Lancet Digital Health, August 2022, Elsevier

    Mauricio Barahona

  61. Reflection on modern methods: constructing directed acyclic graphs (DAGs) with domain experts for health services research

    Article • International Journal of Epidemiology, June 2022, Oxford University Press (OUP)

    Mauricio Barahona

  62. Relative, local and global dimension in complex networks

    Article • Nature Communications, June 2022, Springer Science + Business Media

    Mauricio Barahona

  63. Formalising triage in general practice towards a more equitable, safe, and efficient allocation of resources

    Article • BMJ, May 2022, BMJ

    Mauricio Barahona

  64. LOng COvid Multidisciplinary consortium Optimising Treatments and servIces acrOss the NHS (LOCOMOTION): protocol for a mixed-methods study in the UK

    Article • BMJ Open, May 2022, BMJ

    Mauricio Barahona

  65. Complex interlinkages, key objectives, and nexuses among the Sustainable Development Goals and climate change: a network analysis

    Article • The Lancet Planetary Health, May 2022, Elsevier

    Mauricio Barahona

  66. Protocol for mixed-method study by LOng COvid Multidisciplinary consortium: Optimising Treatments and servIces acrOss the NHS (LOCOMOTION)

    Article • April 2022, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  67. Quantifying the Alignment of Graph and Features in Deep Learning

    Article • IEEE Transactions on Neural Networks and Learning Systems, April 2022, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  68. Prediction of gene essentiality using machine learning and genome-scale metabolic models

    Article • March 2022, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  69. Improved contact tracing using network analysis and spatial-temporal proximity

    Article • International Journal of Infectious Diseases, March 2022, Elsevier

    Mauricio Barahona

  70. Prediction of hospital-onset COVID-19 using networks of patient contact: an observational study

    Article • International Journal of Infectious Diseases, March 2022, Elsevier

    Mauricio Barahona

  71. Prediction of gene essentiality using machine learning and genome-scale metabolic models

    Article • IFAC-PapersOnLine, January 2022, Elsevier

    Mauricio Barahona

  72. Listening to Mental Health Crisis Needs at Scale: Using Natural Language Processing to Understand and Evaluate a Mental Health Crisis Text Messaging Service

    Article • Frontiers in Digital Health, December 2021, Frontiers

    Mauricio Barahona

  73. Patterns of healthcare utilisation in children and young people: a retrospective cohort study using routinely collected healthcare data in Northwest London

    Article • BMJ Open, December 2021, BMJ

    Mauricio Barahona

  74. Listening to mental health crisis needs at scale: using Natural Language Processing to understand and evaluate a mental health crisis text messaging service

    Article • November 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  75. Integrated analysis of patient networks and plasmid genomes reveals a regional, multi-species outbreak of carbapenemase-producing Enterobacterales carrying bothblaIMPandmcr-9genes

    Article • October 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  76. Predicting hospital-onset COVID-19 infections using dynamic networks of patient contacts: an observational study

    Article • September 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  77. Long- and short-term history effects in a spiking network model of statistical learning

    Article • September 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  78. Correction to: Informing antimicrobial management in the context of COVID-19: understanding the longitudinal dynamics of C-reactive protein and procalcitonin

    Article • BMC Infectious Diseases, September 2021, Springer Science + Business Media

    Mauricio Barahona

  79. Informing antimicrobial management in the context of COVID-19: understanding the longitudinal dynamics of C-reactive protein and procalcitonin

    Article • BMC Infectious Diseases, September 2021, Springer Science + Business Media

    Mauricio Barahona

  80. Repurposed floxacins targeting RSK4 prevent chemoresistance and metastasis in lung and bladder cancer

    Article • Science Translational Medicine, July 2021, American Association for the Advancement of Science

    Mauricio Barahona

  81. Dimensionality reduction and data integration for scRNA-seq data based on integrative hierarchical Poisson factorisation

    Article • July 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  82. Relative, local and global dimension in complex networks

    Article • July 2021, Springer Science + Business Media

    Mauricio Barahona

  83. Kernel Two-Sample and Independence Tests for Nonstationary Random Processes

    Article • June 2021, MDPI AG

    Mauricio Barahona

  84. Defining Integrated Care Systems Through Patient Data From Referral Networks in the English National Health Service: A Graph-Based Clustering Study.

    Article • May 2021, Research Square

    Mauricio Barahona

  85. ProteinLens: a web-based application for the analysis of allosteric signalling on atomistic graphs of biomolecules

    Article • Nucleic Acids Research, May 2021, Oxford University Press (OUP)

    Mauricio Barahona

  86. Network memory in the movement of hospital patients carrying antimicrobial-resistant bacteria

    Article • Applied Network Science, May 2021, Springer Science + Business Media

    Mauricio Barahona

  87. Chinks in cancer cells' armor

    Article • Proceedings of the National Academy of Sciences, April 2021, Proceedings of the National Academy of Sciences

    Holger Auner, Mauricio Barahona

  88. Characterising contact in disease outbreaks via a network model of spatial-temporal proximity

    Article • April 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  89. Geometric graphs from data to aid classification tasks with Graph Convolutional Networks

    Article • Patterns, April 2021, Elsevier

    Mauricio Barahona

  90. HCGA: Highly comparative graph analysis for network phenotyping

    Article • Patterns, April 2021, Elsevier

    Mauricio Barahona

  91. Learning compositional sequences with multiple time scales through a hierarchical network of spiking neurons

    Article • PLoS Computational Biology, March 2021, PLOS

    Mauricio Barahona

  92. Similarity Measure for Sparse Time Course Data Based on Gaussian Processes

    Article • March 2021, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  93. Allosteric hotspots in the main protease of SARS-CoV-2

    Article • March 2021, Springer Science + Business Media

    Mauricio Barahona

  94. Understanding learner behaviour in online courses with Bayesian modelling and time series characterisation

    Article • Scientific Reports, February 2021, Springer Science + Business Media

    Mauricio Barahona

  95. Opportunities at the Interface of Network Science and Metabolic Modeling

    Article • Frontiers in Bioengineering and Biotechnology, January 2021, Frontiers

    Mauricio Barahona

  96. Non-invasive suppression of essential tremor via phase-locked disruption of its temporal coherence

    Article • Nature Communications, January 2021, Springer Science + Business Media

    Mauricio Barahona

  97. Complex Interlinkages, Key Objectives and Nexuses Amongst the Sustainable Development Goals and Climate Change

    Article • SSRN Electronic Journal, January 2021, Elsevier

    Mauricio Barahona

  98. Approximations of Countably Infinite Linear Programs over Bounded Measure Spaces

    Article • SIAM Journal on Optimization, January 2021, Society for Industrial & Applied Mathematics (SIAM)

    Mauricio Barahona

  99. Complex Networks & Their Applications IX

    Article • January 2021, Springer Science + Business Media

    Mauricio Barahona

  100. Graph-Based Topic Extraction from Vector Embeddings of Text Documents: Application to a Corpus of News Articles

    Article • January 2021, Springer Science + Business Media

    Mauricio Barahona

  101. Stationary Distributions of Continuous-Time Markov Chains: A Review of Theory and Truncation-Based Approximations

    Article • SIAM Review, January 2021, Society for Industrial & Applied Mathematics (SIAM)

    Mauricio Barahona

  102. Computation of Single-Cell Metabolite Distributions Using Mixture Models

    Article • Frontiers in Cell and Developmental Biology, December 2020, Frontiers

    Mauricio Barahona

  103. Allosteric Hotspots in the Main Protease of SARS-CoV-2

    Article • November 2020, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  104. Computation of single-cell metabolite distributions using mixture models

    Article • October 2020, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  105. New geographic model of care to manage the post-COVID-19 elective surgery aftershock in England: a retrospective observational study

    Article • BMJ Open, October 2020, BMJ

    Mauricio Barahona

  106. hcga: Highly Comparative Graph Analysis for network phenotyping

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  107. Learning compositional sequences with multiple time scales through a hierarchical network of spiking neurons

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  108. Scale-dependent measure of network centrality from diffusion dynamics

    Article • Physical Review Research, July 2020, American Physical Society (APS)

    Mauricio Barahona

  109. Development and Delivery of a Real-time Hospital-onset COVID-19 Surveillance System Using Network Analysis

    Article • Clinical Infectious Diseases, July 2020, Oxford University Press (OUP)

    Mauricio Barahona

  110. Identifying naturally occurring communities of primary care providers in the English National Health Service in London

    Article • BMJ Open, July 2020, BMJ

    Mauricio Barahona

  111. Non-invasive Amelioration of Essential Tremor via Phase-Locked Disruption of its Temporal Coherence

    Article • June 2020, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  112. A primary care network analysis: natural communities of general practices in London

    Article • British Journal of General Practice, June 2020, Royal College of General Practitioners

    Mauricio Barahona

  113. Cellular memory enhances bacterial chemotactic navigation in rugged environments

    Article • Communications Physics, March 2020, Springer Science + Business Media

    Mauricio Barahona

  114. Learning spatiotemporal signals using a recurrent spiking network that discretizes time

    Article • PLoS Computational Biology, January 2020, PLOS

    Mauricio Barahona

  115. Graph-based data clustering via multiscale community detection

    Article • Applied Network Science, January 2020, Springer Science + Business Media

    Mauricio Barahona

  116. Geometric Graphs from Data to Aid Classification Tasks with Graph Convolutional Networks

    Article • SSRN Electronic Journal, January 2020, Elsevier

    Mauricio Barahona

  117. HCGA: Highly Comparative Graph Analysis for Network Phenotyping

    Article • SSRN Electronic Journal, January 2020, Elsevier

    Mauricio Barahona

  118. HyperTraPS: Inferring Probabilistic Patterns of Trait Acquisition in Evolutionary and Disease Progression Pathways

    Article • Cell Systems, January 2020, Elsevier

    Mauricio Barahona

  119. Semi-supervised classification on graphs using explicit diffusion dynamics

    Article • Foundations of Data Science, January 2020, American Institute of Mathematical Sciences (AIMS)

    Mauricio Barahona

  120. Edge-based formulation of elastic network models

    Article • Physical Review Research, December 2019, American Physical Society (APS)

    Mauricio Barahona

  121. Structured Networks and Coarse‐Grained Descriptions

    Article • November 2019, Wiley

    Mauricio Barahona

  122. Unsupervised Graph-Based Learning Predicts Mutations That Alter Protein Dynamics

    Article • November 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  123. An edge-based formulation of elastic network models

    Article • November 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  124. Integrated Systems Level Examination of Proteasome Inhibitor Stress Recovery in Myeloma Cells Reveals Druggable Vulnerabilities Linked to Multiple Metabolic Processes

    Article • Blood, November 2019, American Society of Hematology

    Mauricio Barahona

  125. Data-driven unsupervised clustering of online learner behaviour

    Article • npj Science of Learning, September 2019, Springer Science + Business Media

    Mauricio Barahona

  126. Beyond local gradient-sensing: memory effects in bacterial chemotactic navigation

    Article • August 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  127. Bounding the stationary distributions of the chemical master equation via mathematical programming

    Article • The Journal of Chemical Physics, July 2019, American Institute of Physics

    Mauricio Barahona

  128. Precision identification of high-risk phenotypes and progression pathways in severe malaria without requiring longitudinal data

    Article • npj Digital Medicine, July 2019, Springer Science + Business Media

    Mauricio Barahona

  129. Learning spatiotemporal signals using a recurrent spiking network that discretizes time

    Article • July 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  130. Abstract 1775: Targeting RSK4 prevents both chemoresistance and metastasis in lung cancer

    Article • Cancer Research, July 2019, American Association for Cancer Research (AACR)

    Mauricio Barahona

  131. Multiscale dynamical embeddings of complex networks

    Article • Physical Review E, June 2019, American Physical Society (APS)

    Mauricio Barahona

  132. Transitions of care across hospital settings in patients with inflammatory bowel disease

    Article • World Journal of Gastroenterology, May 2019, Baishideng Publishing Group Co., Limited (formerly WJG Press)

    Mauricio Barahona

  133. Defining Hospital Catchment Areas Using Multiscale Community Detection: A Case Study for Planned Orthopaedic Care in England

    Article • May 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  134. Stochastic modelling reveals mechanisms of metabolic heterogeneity

    Article • Communications Biology, March 2019, Springer Science + Business Media

    Mauricio Barahona

  135. From free text to clusters of content in health records: an unsupervised graph partitioning approach

    Article • Applied Network Science, January 2019, Springer Science + Business Media

    Mauricio Barahona

  136. Stochastic modelling reveals mechanisms of metabolic heterogeneity

    Article • January 2019, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  137. Collective Search With Finite Perception: Transient Dynamics and Search Efficiency

    Article • Frontiers in Physics, January 2019, Frontiers

    Mauricio Barahona

  138. The Exit Time Finite State Projection Scheme: Bounding Exit Distributions and Occupation Measures of Continuous-Time Markov Chains

    Article • SIAM Journal on Scientific Computing, January 2019, Society for Industrial & Applied Mathematics (SIAM)

    Mauricio Barahona

  139. Guiding interoperable electronic health records through patient-sharing networks

    Article • npj Digital Medicine, December 2018, Springer Science + Business Media

    Mauricio Barahona

  140. Guiding Interoperable Electronic Health Records Through Patient Sharing Networks

    Article • November 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  141. Precision identification and prediction of high mortality phenotypes and disease progression pathways in severe malaria without requiring longitudinal data

    Article • September 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  142. Collective search with finite perception: transient dynamics and search efficiency

    Article • September 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  143. Inferring high-dimensional pathways of trait acquisition in evolution and disease

    Article • September 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  144. Flux-dependent graphs for metabolic networks

    Article • npj Systems Biology and Applications, August 2018, Springer Science + Business Media

    Mauricio Barahona

  145. Allostery and cooperativity in multimeric proteins: bond-to-bond propensities in ATCase

    Article • Scientific Reports, July 2018, Springer Science + Business Media

    Mauricio Barahona

  146. Allostery and cooperativity in multimeric proteins: bond-to-bond propensities in ATCase

    Article • June 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  147. Computational Re-design of Synthetic Genetic Oscillators for Independent Amplitude and Frequency Modulation

    Article • Cell Systems, April 2018, Elsevier

    Mauricio Barahona

  148. Flux-dependent graphs for metabolic networks

    Article • March 2018, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  149. Modelling the Dynamics of Biological Systems with the Geometric Hidden Markov Model

    Article • November 2017, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  150. Computational Re-Design of Synthetic Genetic Oscillators for Independent Amplitude and Frequency Modulation

    Article • August 2017, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  151. Geometric multiscale community detection: Markov stability and vector partitioning

    Article • Journal of Complex Networks, July 2017, Oxford University Press (OUP)

    Mauricio Barahona

  152. Kinetic Analysis Reveals the Identity of Aβ-Metal Complex Responsible for the Initial Aggregation of Aβ in the Synapse

    Article • ACS Chemical Neuroscience, June 2017, American Chemical Society (ACS)

    Mauricio Barahona

  153. GlnK Facilitates the Dynamic Regulation of Bacterial Nitrogen Assimilation

    Article • Biophysical Journal, May 2017, Elsevier

    Mauricio Barahona

  154. GlnK facilitates the dynamic regulation of bacterial nitrogen assimilation

    Article • April 2017, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  155. SC3: consensus clustering of single-cell RNA-seq data

    Article • Nature Chemical Biology, March 2017, Springer Science + Business Media

    Mauricio Barahona

  156. Toward Precision Healthcare: Context and Mathematical Challenges

    Article • Frontiers in Physiology, March 2017, Frontiers

    Mauricio Barahona

  157. Correction: Emergence of Slow-Switching Assemblies in Structured Neuronal Networks

    Article • PLoS Computational Biology, February 2017, PLOS

    Mauricio Barahona

  158. The ‘who’ and ‘what’ of #diabetes on Twitter

    Article • Digital Health, January 2017, SAGE Publications

    Mauricio Barahona, Dr Amy Kathleen McLennan

  159. Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization

    Article • Journal of The Royal Society Interface, January 2017, Royal Society Publishing

    Mauricio Barahona

  160. Graph partitions and cluster synchronization in networks of oscillators

    Article • Chaos An Interdisciplinary Journal of Nonlinear Science, September 2016, American Institute of Physics

    Mauricio Barahona

  161. Prediction of allosteric sites and mediating interactions through bond-to-bond propensities

    Article • Nature Communications, August 2016, Springer Science + Business Media

    Mauricio Barahona

  162. Flow-Based Network Analysis of the Caenorhabditis elegans Connectome

    Article • PLoS Computational Biology, August 2016, PLOS

    Mauricio Barahona

  163. Linear models of activation cascades: analytical solutions and coarse-graining of delayed signal transduction

    Article • Journal of The Royal Society Interface, August 2016, Royal Society Publishing

    Mauricio Barahona

  164. Long-term, layer-specific reverberant activity in the mouse somatosensory cortex following sensory stimulation

    Article • June 2016, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  165. Prediction of allosteric sites and mediating interactions through bond-to-bond propensities

    Article • May 2016, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  166. Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization

    Article • May 2016, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  167. Community detection and role identification in directed networks: Understanding the Twitter network of the care.data debate

    Article • March 2016, World Scientific Pub Co Pte Lt

    Mauricio Barahona

  168. Window functions and sigmoidal behaviour of memristive systems

    Article • International Journal of Circuit Theory and Applications, February 2016, Wiley

    Mauricio Barahona

  169. SC3 - consensus clustering of single-cell RNA-Seq data

    Article • January 2016, Cold Spring Harbor Laboratory Press

    Mauricio Barahona

  170. Bounding Stationary Averages of Polynomial Diffusions via Semidefinite Programming

    Article • SIAM Journal on Scientific Computing, January 2016, Society for Industrial & Applied Mathematics (SIAM)

    Mauricio Barahona

  171. Great cities look small

    Article • Journal of The Royal Society Interface, July 2015, Royal Society Publishing

    Mauricio Barahona

  172. Emergence of Slow-Switching Assemblies in Structured Neuronal Networks

    Article • PLoS Computational Biology, July 2015, PLOS

    Mauricio Barahona

  173. Abstracts

    Article • European Biophysics Journal, June 2015, Springer Science + Business Media

    Mauricio Barahona

  174. PDGFRα demarcates the cardiogenic clonogenic Sca1+ stem/progenitor cell in adult murine myocardium

    Article • Nature Communications, May 2015, Springer Science + Business Media

    Mauricio Barahona

  175. Amplification of small molecule-inducible gene expression via tuning of intracellular receptor densities

    Article • Nucleic Acids Research, January 2015, Oxford University Press (OUP)

    Mauricio Barahona

  176. Dynamics of Cluster Synchronisation in Modular Networks: Implications for Structural and Functional Networks

    Article • January 2015, Springer Science + Business Media

    Mauricio Barahona

  177. Secondary Metal Binding to Amyloid-Beta Monomer is Insignificant under Synaptic Conditions

    Article • Biophysical Journal, January 2015, Elsevier

    Mauricio Barahona

  178. Introduction of a Fluorescent Probe to Amyloid-β to Reveal Kinetic Insights into Its Interactions with Copper(II)

    Article • Angewandte Chemie, December 2014, Wiley

    Mauricio Barahona

  179. Introduction of a Fluorescent Probe to Amyloid‐β to Reveal Kinetic Insights into Its Interactions with Copper(II)

    Article • Angewandte Chemie, December 2014, Wiley

    Mauricio Barahona

  180. On memristor ideality and reciprocity

    Article • Microelectronics Journal, November 2014, Elsevier

    Mauricio Barahona

  181. Interest communities and flow roles in directed networks: the Twitter network of the UK riots

    Article • Journal of The Royal Society Interface, October 2014, Royal Society Publishing

    Mauricio Barahona

  182. Revealing cell assemblies at multiple levels of granularity

    Article • Journal of Neuroscience Methods, October 2014, Elsevier

    Mauricio Barahona

  183. Engineering modular and tunable genetic amplifiers for scaling transcriptional signals in cascaded gene networks

    Article • Nucleic Acids Research, July 2014, Oxford University Press (OUP)

    Mauricio Barahona

  184. Random Walks, Markov Processes and the Multiscale Modular Organization of Complex Networks

    Article • IEEE Transactions on Network Science and Engineering, July 2014, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  185. P595PDGFRalpha demarcates the cardiogenic and clonogenic Sca-1+ stem cell

    Article • Cardiovascular Research, June 2014, European Society of Cardiology

    Mauricio Barahona

  186. HhexandCer1Mediate the Sox17 Pathway for Cardiac Mesoderm Formation in Embryonic Stem Cells

    Article • Stem Cells, May 2014, Wiley

    Mauricio Barahona

  187. Structure of complex networks: Quantifying edge-to-edge relations by failure-induced flow redistribution

    Article • Network Science, April 2014, Cambridge University Press

    Mauricio Barahona

  188. Uncovering allosteric pathways in caspase-1 using Markov transient analysis and multiscale community detection

    Article • Molecular BioSystems, January 2014, Royal Society of Chemistry

    Mauricio Barahona

  189. Kinetics of Metal Amyloid-Beta Binding and Efficacy of Ligands Targeting Metal Amyloid-Beta Interactions

    Article • Biophysical Journal, January 2014, Elsevier

    Mauricio Barahona

  190. Kinetics of the Interconversion Between Two Physiologically Important Copper-Bound Amyloid-Beta Species

    Article • Biophysical Journal, January 2014, Elsevier

    Mauricio Barahona

  191. Finding role communities in directed networks using Role-Based Similarity, Markov Stability and the Relaxed Minimum Spanning Tree

    Article • December 2013, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  192. Ideal memristors as reciprocal elements

    Article • December 2013, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  193. On periodic reference tracking using batch-mode reinforcement learning with application to gene regulatory network control

    Article • December 2013, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  194. Nitrogen and Carbon Status Are Integrated at the Transcriptional Level by the Nitrogen Regulator NtrC In Vivo

    Article • mBio, November 2013, ASM Journals

    Mauricio Barahona

  195. Observability and coarse graining of consensus dynamics through the external equitable partition

    Article • Physical Review E, October 2013, American Physical Society (APS)

    Mauricio Barahona

  196. Rewiring cell signalling through chimaeric regulatory protein engineering

    Article • Biochemical Society Transactions, September 2013, Portland Press Ltd.

    Mauricio Barahona

  197. Tuning the dials of Synthetic Biology

    Article • Microbiology, May 2013, Society for General Microbiology

    Mauricio Barahona

  198. Decentralised minimum-time consensus

    Article • Automatica, May 2013, Elsevier

    Mauricio Barahona

  199. Risk factor-dependent dynamics of atopic dermatitis: modelling multi-scale regulation of epithelium homeostasis

    Article • Interface Focus, February 2013, Royal Society Publishing

    Dr Masahiro Ono, Mauricio Barahona

  200. A modular cell-based biosensor using engineered genetic logic circuits to detect and integrate multiple environmental signals

    Article • Biosensors and Bioelectronics, February 2013, Elsevier

    Mauricio Barahona

  201. Communities in Evolving Networks: Definitions, Detection, and Analysis Techniques

    Article • January 2013, Springer Science + Business Media

    Mauricio Barahona

  202. The Stability of a Graph Partition: A Dynamics-Based Framework for Community Detection

    Article • January 2013, Springer Science + Business Media

    Mauricio Barahona

  203. Robustness of random graphs based on graph spectra

    Article • Chaos An Interdisciplinary Journal of Nonlinear Science, October 2012, American Institute of Physics

    Mauricio Barahona

  204. Combinatorial stresses kill pathogenic Candida species

    Article • Medical Mycology, October 2012, Oxford University Press (OUP)

    Dr Tom Thorne, Mauricio Barahona

  205. Encoding dynamics for multiscale community detection: Markov time sweeping for the map equation

    Article • Physical Review E, August 2012, American Physical Society (APS)

    Mauricio Barahona

  206. Engineering and ethical perspectives in synthetic biology

    Article • EMBO Reports, June 2012, EMBO

    Mauricio Barahona

  207. Device Properties of Bernoulli Memristors

    Article • Proceedings of the IEEE, June 2012, Institute of Electrical & Electronics Engineers (IEEE)

    Panayiotis Georgiou, Mauricio Barahona

  208. Sensory experience modifies spontaneous state dynamics in a large-scale barrel cortical model

    Article • Journal of Computational Neuroscience, March 2012, Springer Science + Business Media

    Mauricio Barahona

  209. Quantitative measure of hysteresis for memristors through explicit dynamics

    Article • Proceedings of the Royal Society A Mathematical Physical and Engineering Sciences, March 2012, Royal Society Publishing

    Panayiotis Georgiou, Mauricio Barahona

  210. Markov Dynamics as a Zooming Lens for Multiscale Community Detection: Non Clique-Like Communities and the Field-of-View Limit

    Article • PLOS One, February 2012, PLOS

    Mauricio Barahona

  211. Squeeze-and-breathe evolutionary Monte Carlo optimization with local search acceleration and its application to parameter fitting

    Article • Journal of The Royal Society Interface, January 2012, Royal Society Publishing

    Mauricio Barahona

  212. Compound stress response in stomatal closure: a mathematical model of ABA and ethylene interaction in guard cells

    Article • BMC Systems Biology, January 2012, Springer Science + Business Media

    Mauricio Barahona

  213. Stochastic oscillatory dynamics of generalized repressilators

    Article • January 2012, American Institute of Physics

    Mauricio Barahona

  214. Decentralised minimal-time consensus

    Article • December 2011, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  215. Spectral Measure of Structural Robustness in Complex Networks

    Article • IEEE Transactions on Systems Man and Cybernetics - Part A Systems and Humans, November 2011, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  216. Protein multi-scale organization through graph partitioning and robustness analysis: application to the myosin–myosin light chain interaction

    Article • Physical Biology, August 2011, Institute of Physics Publishing

    Mauricio Barahona

  217. Flow graphs: Interweaving dynamics and structure

    Article • Physical Review E, July 2011, American Physical Society (APS)

    Mauricio Barahona

  218. Robustness of regular ring lattices based on natural connectivity

    Article • International Journal of Systems Science, July 2011, Taylor & Francis

    Mauricio Barahona

  219. Transient dynamics around unstable periodic orbits in the generalized repressilator model

    Article • Chaos An Interdisciplinary Journal of Nonlinear Science, April 2011, American Institute of Physics

    Mauricio Barahona

  220. Obtaining certificates for complete synchronisation of coupled oscillators

    Article • Physica D Nonlinear Phenomena, April 2011, Elsevier

    Mauricio Barahona

  221. Natural Connectivity of Complex Networks

    Article • Chinese Physics Letters, July 2010, Institute of Physics Publishing

    Mauricio Barahona

  222. How is a sensory stimulus represented in ongoing dynamics in the barrel cortex?

    Article • BMC Neuroscience, July 2010, Springer Science + Business Media

    Mauricio Barahona

  223. Stability of graph communities across time scales

    Article • Proceedings of the National Academy of Sciences, June 2010, Proceedings of the National Academy of Sciences

    Mauricio Barahona

  224. Crowding-Induced Anisotropic Transport Modulates Reaction Kinetics in Nanoscale Porous Media

    Article • The Journal of Physical Chemistry, April 2010, American Chemical Society (ACS)

    Mauricio Barahona

  225. The Effect of Spatially Inhomogeneous Extracellular Electric Fields on Neurons

    Article • Journal of Neuroscience, February 2010, Society for Neuroscience

    Mauricio Barahona

  226. Memristors and Bernoulli dynamics

    Article • February 2010, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  227. Switchable genetic oscillator operating in quasi-stable mode

    Article • Journal of The Royal Society Interface, January 2010, Royal Society Publishing

    Mauricio Barahona

  228. Solutions of weakly reversible chemical reaction networks are bounded and persistent*

    Article • IFAC Proceedings Volumes, January 2010, Elsevier

    Mauricio Barahona

  229. Interplay between spontaneous and sensory activities in barrel cortex: a computational study

    Article • BMC Neuroscience, July 2009, Springer Science + Business Media

    Mauricio Barahona

  230. An analysis of the Map Seeking Circuit and Monte Carlo extensions

    Article • April 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  231. X-ray diffraction measurement of the monolayer spontaneous curvature of dioleoylphosphatidylglycerol

    Article • Chemistry and Physics of Lipids, July 2008, Elsevier

    Mauricio Barahona

  232. Synchronization of oscillators in complex networks

    Article • Pramana, June 2008, Springer Science + Business Media

    Mauricio Barahona

  233. A Dominated Coupling From The Past algorithm for the stochastic simulation of networks of biochemical reactions

    Article • BMC Systems Biology, May 2008, Springer Science + Business Media

    Mauricio Barahona

  234. Transcriptome-wide noise controls lineage choice in mammalian progenitor cells

    Article • Nature, May 2008, Springer Science + Business Media

    Mauricio Barahona

  235. Biophysical Regulation of Lipid Biosynthesis in the Plasma Membrane

    Article • Biophysical Journal, April 2008, Elsevier

    Mauricio Barahona

  236. Chemistry across scales: from molecules to cells

    Article • Philosophical Transactions of the Royal Society A Mathematical Physical and Engineering Sciences, September 2007, Royal Society Publishing

    Mauricio Barahona

  237. Full analogue electronic realisation of the Hodgkin-Huxley neuronal dynamics in weak-inversion CMOS

    Article • August 2007, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  238. Perfect Sampling of the Master Equation for Gene Regulatory Networks

    Article • Biophysical Journal, July 2007, Elsevier

    Mauricio Barahona

  239. Noise characteristics of interlocked repressilators

    Article • BMC Systems Biology, May 2007, Springer Science + Business Media

    Mauricio Barahona

  240. A Dynamical Model of Lipoprotein Metabolism

    Article • The Bulletin of Mathematical Biophysics, March 2007, Springer Science + Business Media

    Mauricio Barahona

  241. Stochastic Kinetics of Viral Capsid Assembly Based on Detailed Protein Structures

    Article • Biophysical Journal, May 2006, Elsevier

    Mauricio Barahona

  242. Synchronization in Small-World Systems

    Article • Physical Review Letters, July 2002, American Physical Society (APS)

    Mauricio Barahona

  243. Self-Assembled, Deterministic Carbon Nanotube Wiring Networks This work was funded by the Office of Naval Research, DARPA, and an NSF-FRG grant.

    Article • Angewandte Chemie, January 2002, Wiley

    Mauricio Barahona

  244. A new bound of the /spl Lscr//sub 2/[0, T]-induced norm and applications to model reduction

    Article • January 2002, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  245. Titration of chaos with added noise

    Article • Proceedings of the National Academy of Sciences, June 2001, Proceedings of the National Academy of Sciences

    Mauricio Barahona

  246. Pinned states in Josephson arrays: A general stability theorem

    Article • September 1998, American Physical Society (APS)

    Mauricio Barahona

  247. Erratum: Superconducting states and depinning transitions of Josephson ladders [Phys. Rev. B57, 1181 (1998)]

    Article • September 1998, American Physical Society (APS)

    Mauricio Barahona

  248. Dynamics of one-dimensional Josephson-junction arrays

    Article • Physica D Nonlinear Phenomena, August 1998, Elsevier

    Mauricio Barahona

  249. Row-switched states in two-dimensional underdamped Josephson-junction arrays

    Article • May 1998, American Physical Society (APS)

    Mauricio Barahona

  250. Superconducting states and depinning transitions of Josephson ladders

    Article • January 1998, American Physical Society (APS)

    Mauricio Barahona

  251. Intrinsic phase-locked state in two-dimensional Nb Josephson arrays

    Article • IEEE Transactions on Applied Superconductivity, June 1997, Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  252. Resonances of dynamical checkerboard states in Josephson arrays with self-inductance

    Article • May 1997, American Physical Society (APS)

    Mauricio Barahona

  253. Detection of nonlinear dynamics in short, noisy time series

    Article • Nature, May 1996, Springer Science + Business Media

    Mauricio Barahona

  254. Ba2(RE)Cu3O7−δ(RE=La, Pr, Nd, Sm, Gd): Crystal growth, structure and magnetic properties

    Article • Solid State Ionics, February 1989, Elsevier

    Mauricio Barahona

  255. Ba2PrCu3O7: Crystal growth, structure and magnetic properties

    Article • Solid State Communications, July 1988, Elsevier

    Professor Juan Rodriguez-Carvajal, Mauricio Barahona

  256. Ba2Pr.34+Pr.73+Cu.73+Cu2.32+O7 : Crystal growth, structure and magnetic properties

    Article • Physica C Superconductivity, June 1988, Elsevier

    Professor Juan Rodriguez-Carvajal, Mauricio Barahona

  257. The rare-earth H.T.S.C. family Ba2(RE)Cu3O7; structural, electrical and magnetic studies (RE=Y,Nd,Sm,Eu,Gd,Dy,Ho,Er,Tm)

    Article • Materials Research Bulletin, March 1988, Elsevier

    Professor Flaviano Garcia-Alvarado, Mauricio Barahona

  258. REBa2Cu3O7−δ (RE = Pr, Nd, Sm, Gd): Crystal growth, structure and magnetism

    Article • Solid State Ionics, March 1988, Elsevier

    Mauricio Barahona

  259. Superconducting energy gap and phonon spectra in MBa2Cu3O7−x type materials

    Article • Physica C Superconductivity, January 1988, Elsevier

    Professor Flaviano Garcia-Alvarado, Mauricio Barahona

  260. Infrared and Raman spectra of the new superconducting cuprate perovskites MBa2Cu3O7, M =Nd, Dy, Er, Tm

    Article • Solid State Communications, January 1988, Elsevier

    Mauricio Barahona

  261. Superconducting energy gap inMBa2Cu3O7−δ-type materials

    Article • January 1988, American Physical Society (APS)

    Mauricio Barahona

  262. A biomimetic CMOS synapse

    Article • Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona

  263. Finite horizon model reduction and the appearance of dissipation in Hamiltonian systems

    Article • Institute of Electrical & Electronics Engineers (IEEE)

    Mauricio Barahona