Publications from our Researchers

Several of our current PhD candidates and fellow researchers at the Data Science Institute have published, or in the proccess of publishing, papers to present their research.  

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  • Journal article
    Gan HM, Fernando S, Molina-Solana M, 2021,

    Scalable object detection pipeline for traffic cameras: Application to Tfl JamCams

    , Expert Systems with Applications, Vol: 182, Pages: 1-15, ISSN: 0957-4174

    With CCTV systems being installed in the transport infrastructures of many cities, there is an abundance of data to be extracted from the footage. This paper explores the application of the YOLOv3 object detection algorithm trained on the COCO dataset to the Transport for London’s (TfL) JamCam feed. The result, open-sourced and publicly available, is a series of easy to deploy Docker pipelines to create, store and serve (through a REST API) data on identified objects on that feed. The pipelines can be deployed to any Linux machine with an NVIDIA GPU to support accelerated computation. We studied how different confidence thresholds affect detections of relevant objects (cars, trucks and pedestrians) in London JamCam scenes. By running the system continuously for 3 weeks, we built a dataset of more than 2200 detection datapoints for each camera (̃6 datapoints an hour). We further visualised the detections on an animated geospatial map, showcasing their effectiveness in identifying traffic patterns typical of an urban city like London, portraying the variation on different object population levels throughout the day.

  • Journal article
    Kuc J, Kettner H, Rosas F, Erritzoe D, Haijen E, Kaelen M, Nutt D, Carhart-Harris RLet al., 2021,

    Psychedelic experience dose-dependently modulated by cannabis: results of a prospective online survey

    , Psychopharmacology, Vol: 239, Pages: 1425-1440, ISSN: 0033-3158

    Rationale.Classic psychedelics are currently being studied as novel treatments for a range of psychiatric disorders. However, research on how psychedelics interact with other psychoactive substances remains scarce.ObjectivesThe current study aimed to explore the subjective effects of psychedelics when used alongside cannabis.MethodsParticipants (n = 321) completed a set of online surveys at 2 time points: 7 days before, and 1 day after a planned experience with a serotonergic psychedelic. The collected data included demographics, environmental factors (so-called setting) and five validated questionnaires: Mystical Experience Questionnaire (MEQ), visual subscales of Altered States of Consciousness Questionnaire (ASC-Vis), Challenging Experience Questionnaire (CEQ), Ego Dissolution Inventory (EDI) and Emotional Breakthrough Inventory (EBI). Participants were grouped according to whether they had reported using no cannabis (n = 195) or low (n = 53), medium (n = 45) or high (n = 28) dose, directly concomitant with the psychedelic. Multivariate analysis of covariance (MANCOVA) and contrasts was used to analyse differences in subjective effects between groups while controlling for potential confounding contextual ‘setting’ variables.ResultsThe simultaneous use of cannabis together with classic serotonergic psychedelics was associated with more intense psychedelic experience across a range of measures: a linear relationship was found between dose and MEQ, ASC-Vis and EDI scores, while a quadratic relationship was found for CEQ scores. No relationship was found between the dose of cannabis and the EBI.ConclusionsResults imply a possible interaction between the cannabis and psychedelic on acute subjective experiences; however, design limitations hamper our ability to draw firm inferences on directions of causality and the clinical implications of any such interactions.

  • Journal article
    Gatica M, Cofre R, Mediano PAM, Rosas FE, Orio P, Diez I, Swinnen SP, Cortes JMet al., 2021,

    High-Order Interdependencies in the Aging Brain

    , BRAIN CONNECTIVITY, Vol: 11, Pages: 734-744, ISSN: 2158-0014
  • Journal article
    Mediano PAM, Rosas FE, Barrett AB, Bor Det al., 2021,

    Decomposing Spectral and Phasic Differences in Nonlinear Features between Datasets

    , Physical Review Letters, Vol: 127, ISSN: 0031-9007
  • Journal article
    Rosas De Andraca FE, Morales P,

    A generalisation of the maximum entropy principle for curved statistical manifolds

    , Physical Review Research, ISSN: 2643-1564

    The maximum entropy principle (MEP) is one of the most prominent methods to investigate andmodel complex systems. Despite its popularity, the standard form of the MEP can only generateBoltzmann-Gibbs distributions, which are ill-suited for many scenarios of interest. As a principledapproach to extend the reach of the MEP, this paper revisits its foundations in information geometryand shows how the geometry of curved statistical manifolds naturally leads to a generalisation of theMEP based on the Rényi entropy. By establishing a bridge between non-Euclidean geometry andthe MEP, our proposal sets a solid foundation for the numerous applications of the Rényi entropy,and enables a range of novel methods for complex systems analysis.

  • Conference paper
    Rosas FE, Mediano PAM, Gastpar M, 2021,

    Learning, compression, and leakage: Minimising classification error via meta-universal compression principles

    , 2020 IEEE Information Theory Workshop (ITW), Publisher: IEEE, Pages: 1-5

    Learning and compression are driven by the common aim of identifying and exploiting statistical regularities in data, which opens the door for fertile collaboration between these areas. A promising group of compression techniques for learning scenarios is normalised maximum likelihood (NML) coding, which provides strong guarantees for compression of small datasets — in contrast with more popular estimators whose guarantees hold only in the asymptotic limit. Here we consider a NMLbased decision strategy for supervised classification problems, and show that it attains heuristic PAC learning when applied to a wide variety of models. Furthermore, we show that the misclassification rate of our method is upper bounded by the maximal leakage, a recently proposed metric to quantify the potential of data leakage in privacy-sensitive scenarios.

  • Journal article
    Medina-Mardones AM, Rosas FE, Rodríguez SE, Cofré Ret al., 2021,

    Hyperharmonic analysis for the study of high-order information-theoretic signals

    , Journal of Physics: Complexity, Vol: 2, Pages: 1-16, ISSN: 2632-072X

    Network representations often cannot fully account for the structural richness of complex systems spanning multiple levels of organisation. Recently proposed high-order information-theoretic signals are well-suited to capture synergistic phenomena that transcend pairwise interactions; however, the exponential-growth of their cardinality severely hinders their applicability. In this work, we combine methods from harmonic analysis and combinatorial topology to construct efficient representations of high-order information-theoretic signals. The core of our method is the diagonalisation of a discrete version of the Laplace–de Rham operator, that geometrically encodes structural properties of the system. We capitalise on these ideas by developing a complete workflow for the construction of hyperharmonic representations of high-order signals, which is applicable to a wide range of scenarios.

  • Journal article
    Huitzil I, Molina-Solana M, Gómez-Romero J, Bobillo Fet al., 2021,

    Minimalistic fuzzy ontology reasoning: An application to Building Information Modeling

    , Applied Soft Computing, Vol: 103, Pages: 1-15, ISSN: 1568-4946

    This paper presents a minimalistic reasoning algorithm to solve imprecise instance retrieval in fuzzy ontologies with application to querying Building Information Models (BIMs)—a knowledge representation formalism used in the construction industry. Our proposal is based on a novel lossless reduction of fuzzy to crisp reasoning tasks, which can be processed by any Description Logics reasoner. We implemented the minimalistic reasoning algorithm and performed an empirical evaluation of its performance in several tasks: interoperation with classical reasoners (Hermit and TrOWL), initialization time (comparing TrOWL and a SPARQL engine), and use of different data structures (hash tables, databases, and programming interfaces). We show that our software can efficiently solve very expressive queries not available nowadays in regular or semantic BIMs tools.

  • Journal article
    Tajnafoi G, Arcucci R, Mottet L, Vouriot C, Molina-Solana M, Pain C, Guo Y-Ket al., 2021,

    Variational Gaussian process for optimal sensor placement

    , Applications of Mathematics, Vol: 66, Pages: 287-317, ISSN: 0373-6725

    Sensor placement is an optimisation problem that has recently gained great relevance. In order to achieve accurate online updates of a predictive model, sensors are used to provide observations. When sensor location is optimally selected, the predictive model can greatly reduce its internal errors. A greedy-selection algorithm is used for locating these optimal spatial locations from a numerical embedded space. A novel architecture for solving this big data problem is proposed, relying on a variational Gaussian process. The generalisation of the model is further improved via the preconditioning of its inputs: Masked Autoregressive Flows are implemented to learn nonlinear, invertible transformations of the conditionally modelled spatial features. Finally, a global optimisation strategy extending the Mutual Information-based optimisation and fine-tuning of the selected optimal location is proposed. The methodology is parallelised to speed up the computational time, making these tools very fast despite the high complexity associated with both spatial modelling and placement tasks. The model is applied to a real three-dimensional test case considering a room within the Clarence Centre building located in Elephant and Castle, London, UK.

  • Conference paper
    Bonavita M, Arcucci R, Carrassi A, Dueben P, Geer AJ, Le Saux B, Longepe N, Mathieu P-P, Raynaud Let al., 2021,

    Machine Learning for Earth System Observation and Prediction

    , Publisher: AMER METEOROLOGICAL SOC, Pages: E710-E716, ISSN: 0003-0007
  • Journal article
    Kettner HS, Rosas F, Timmermann C, Kärtner L, Carhart-Harris RL, Roseman Let al., 2021,

    Psychedelic Communitas: intersubjective experience during psychedelic group sessions predicts enduring changes in psychological wellbeing and social connectedness

    , Frontiers in Pharmacology, Vol: 12, ISSN: 1663-9812

    Background: Recent years have seen a resurgence of research on the potential of psychedelic substances to treat addictive and mood disorders. Historically and contemporarily, psychedelic studies have emphasized the importance of contextual elements ('set and setting') in modulating acute drug effects, and ultimately, influencing long-term outcomes. Nevertheless, current small-scale clinical and laboratory studies have tended to bypass a ubiquitous contextual feature of naturalistic psychedelic use: its social dimension. This study introduces and psychometrically validates an adapted Communitas Scale, assessing acute relational experiences of perceived togetherness and shared humanity, in order to investigate psychosocial mechanisms pertinent to psychedelic ceremonies and retreats.Methods: In this observational, web-based survey study, participants (N = 886) were measured across five successive time-points: 2 weeks before, hours before, and the day after a psychedelic ceremony; as well as the day after, and 4 weeks after leaving the ceremony location. Demographics, psychological traits and state variables were assessed pre-ceremony, in addition to changes in psychological wellbeing and social connectedness from before to after the retreat, as primary outcomes. Using correlational and multiple regression (path) analyses, predictive relationships between psychosocial 'set and setting' variables, communitas, and long-term outcomes were explored.Results: The adapted Communitas Scale demonstrated substantial internal consistency (Cronbach's alpha = 0.92) and construct validity in comparison with validated measures of intra-subjective (visual, mystical, challenging experiences questionnaires) and inter-subjective (perceived emotional synchrony, identity fusion) experiences. Furthermore, communitas during ceremony was significantly correlated with increases in psychological wellbeing (r = 0.22), social connectedness (r = 0.25), and other salient mental health outcomes. Path

  • Journal article
    Wu P, Chang X, Yuan W, Sun J, Zhang W, Arcucci R, Guo Yet al., 2021,

    Fast data assimilation (FDA): Data assimilation by machine learning for faster optimize model state

    , JOURNAL OF COMPUTATIONAL SCIENCE, Vol: 51, ISSN: 1877-7503
  • Journal article
    Szigeti B, Kartner L, Blemings A, Rosas F, Feilding A, Nutt DJ, Carhart-Harris RL, Erritzoe Det al., 2021,

    Self-blinding citizen science to explore psychedelic microdosing

    , eLife, Vol: 10, Pages: 1-26, ISSN: 2050-084X

    Microdosing is the practice of regularly using low doses of psychedelic drugs. Anecdotal reports suggest that microdosing enhances well-being and cognition; however, such accounts are potentially biased by the placebo effect. This study used a ‘self-blinding’ citizen science initiative, where participants were given online instructions on how to incorporate placebo control into their microdosing routine without clinical supervision. The study was completed by 191 participants, making it the largest placebo-controlled trial on psychedelics to-date. All psychological outcomes improved significantly from baseline to after the 4 weeks long dose period for the microdose group; however, the placebo group also improved and no significant between-groups differences were observed. Acute (emotional state, drug intensity, mood, energy, and creativity) and post-acute (anxiety) scales showed small, but significant microdose vs. placebo differences; however, these results can be explained by participants breaking blind. The findings suggest that anecdotal benefits of microdosing can be explained by the placebo effect.

  • Journal article
    Kumar P, Kalaiarasan G, Porter AE, Pinna A, Kłosowski MM, Demokritou P, Chung KF, Pain C, Arvind DK, Arcucci R, Adcock IM, Dilliway Cet al., 2021,

    An overview of methods of fine and ultrafine particle collection for physicochemical characterisation and toxicity assessments.

    , Science of the Total Environment, Vol: 756, Pages: 1-22, ISSN: 0048-9697

    Particulate matter (PM) is a crucial health risk factor for respiratory and cardiovascular diseases. The smaller size fractions, ≤2.5 μm (PM2.5; fine particles) and ≤0.1 μm (PM0.1; ultrafine particles), show the highest bioactivity but acquiring sufficient mass for in vitro and in vivo toxicological studies is challenging. We review the suitability of available instrumentation to collect the PM mass required for these assessments. Five different microenvironments representing the diverse exposure conditions in urban environments are considered in order to establish the typical PM concentrations present. The highest concentrations of PM2.5 and PM0.1 were found near traffic (i.e. roadsides and traffic intersections), followed by indoor environments, parks and behind roadside vegetation. We identify key factors to consider when selecting sampling instrumentation. These include PM concentration on-site (low concentrations increase sampling time), nature of sampling sites (e.g. indoors; noise and space will be an issue), equipment handling and power supply. Physicochemical characterisation requires micro- to milli-gram quantities of PM and it may increase according to the processing methods (e.g. digestion or sonication). Toxicological assessments of PM involve numerous mechanisms (e.g. inflammatory processes and oxidative stress) requiring significant amounts of PM to obtain accurate results. Optimising air sampling techniques are therefore important for the appropriate collection medium/filter which have innate physical properties and the potential to interact with samples. An evaluation of methods and instrumentation used for airborne virus collection concludes that samplers operating cyclone sampling techniques (using centrifugal forces) are effective in collecting airborne viruses. We highlight that predictive modelling can help to identify pollution hotspots in an urban environment for the efficient collection of PM mass. This review provides

  • Journal article
    Turkheimer FE, Rosas FE, Dipasquale O, Martins D, Fagerholm ED, Expert P, Vasa F, Lord L-D, Leech Ret al., 2021,

    A complex systems perspective on neuroimaging studies of behavior and its disorders

    , The Neuroscientist: reviews at the interface of basic and clinical neurosciences, Vol: 28, Pages: 382-399, ISSN: 1073-8584

    The study of complex systems deals with emergent behavior that arises as a result of nonlinear spatiotemporal interactions between a large number of components both within the system, as well as between the system and its environment. There is a strong case to be made that neural systems as well as their emergent behavior and disorders can be studied within the framework of complexity science. In particular, the field of neuroimaging has begun to apply both theoretical and experimental procedures originating in complexity science—usually in parallel with traditional methodologies. Here, we illustrate the basic properties that characterize complex systems and evaluate how they relate to what we have learned about brain structure and function from neuroimaging experiments. We then argue in favor of adopting a complex systems-based methodology in the study of neuroimaging, alongside appropriate experimental paradigms, and with minimal influences from noncomplex system approaches. Our exposition includes a review of the fundamental mathematical concepts, combined with practical examples and a compilation of results from the literature.

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