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It is vital that horizon scanning organizations can capture and disseminate intelligence on new and repurposed medicines in clinical development. To our knowledge, there are no standardized classification systems to capture this intelligence. This study aims to create a novel classification system to allow new and repurposed medicines horizon scanning intelligence to be disseminated to healthcare organizations.
Methods
A multidisciplinary working group undertook literature searching and an iterative, three-stage piloting process to build consensus on a classification system. Supplementary data collection was carried out to facilitate the implementation and validation of the system on the National Institute of Health and Care Research (NIHR) Innovation Observatory (IO)‘s horizon scanning database, the Medicines Innovation Database (MInD).
Results
Our piloting process highlighted important issues such as the patency and regulatory approval status of individual medicines and how combination therapies interact with these characteristics. We created a classification system with six values (New Technology, Repurposed Technology (Off-patent/Generic), Repurposed Technology (On-patent/Branded), Repurposed Technology (Never commercialised), New + Repurposed Technology (Combinations-only), Repurposed Technology (Combinations-only)) that account for these characteristics to provide novel horizon scanning insights. We validated our system through application to over 20,000 technology records on the MInD.
Conclusions
Our system provides the opportunity to deliver concise yet informative intelligence to healthcare organizations and those studying the clinical development landscape of medicines. Inbuilt flexibility and the use of publicly available data sources ensure that it can be utilized by all, regardless of location or resource availability.
Automatic detection and removal of weeds is a challenging task that requires precise sensors. While crops and weeds possess similar features in terms of appearance, they can be discriminated based on spectral information. This can be done because any object has its own specific spectral signature based on its physical structure and chemical contents. This study examined the use of wavelet transform and deep learning for discrimination of weeds from crops. A total of 626 spectral reflectances in the range of 380 to 1,000 nm were obtained for three crops (cucumber [Cucumis sativus L.], tomato [Solanum lycopersicum L.], and bell pepper [Capsicum annuum L.]) and five different weeds (bindweed [Convolvulus spp.], purple nutsedge [Cyperus rotundus L.], narrowleaf plantain [Plantago lanceolata L.], common cinquefoil [Potentilla simplex Michx.], and garden sorrel [Rumex acetosa L.]). Morse wavelet was employed to decompose the spectra and extract the scalograms, which are the RGB representations of the spectral data. Two deep convolutional neural networks (i.e., GoogLeNet and SqueezNet) were employed for the recognition of crops and weeds. In addition, six common classifiers, including linear discriminant analysis, quadratic discriminant analysis, linear support vector machine, quadratic support vector machine, artificial neural networks, and k-nearest neighbors classifier (KNN), were used for the task of crop/weed discrimination to build the comparison with the proposed method. The error of prediction gradually decreased, and a 100% correct classification was achieved after 258 iterations. Analysis showed that SqueezNet provided classification of 100% accuracy, while GoogLeNet’s accuracy was 97.8% for the test set. Among the common classifiers, KNN provided the highest accuracy (i.e., 100%). This study showed that the proposed method can be successfully utilized for classification of crops and weeds.
New advancements in radio data post-processing are underway within the Square Kilometre Array (SKA) precursor community, aiming to facilitate the extraction of scientific results from survey images through a semi-automated approach. Several of these developments leverage deep learning methodologies for diverse tasks, including source detection, object or morphology classification, and anomaly detection. Despite substantial progress, the full potential of these methods often remains untapped due to challenges associated with training large supervised models, particularly in the presence of small and class-unbalanced labelled datasets.
Self-supervised learning has recently established itself as a powerful methodology to deal with some of the aforementioned challenges, by directly learning a lower-dimensional representation from large samples of unlabelled data. The resulting model and data representation can then be used for data inspection and various downstream tasks if a small subset of labelled data is available.
In this work, we explored contrastive learning methods to learn suitable radio data representations by training the SimCLR model on large collections of unlabelled radio images taken from the ASKAP EMU and SARAO MeerKAT GPS surveys. The resulting models were fine-tuned over smaller labelled datasets, including annotated images from various radio surveys, and evaluated on radio source detection and classification tasks. Additionally, we employed the trained self-supervised models to extract features from radio images, which were used in an unsupervised search for objects with peculiar morphology in the ASKAP EMU pilot survey data. For all considered downstream tasks, we reported the model performance metrics and discussed the benefits brought by self-supervised pre-training, paving the way for building radio foundational models in the SKA era.
Around the world, people living in objectively difficult circumstances who experience symptoms of generalized anxiety disorder (GAD) do not qualify for a diagnosis because their worry is not ‘excessive’ relative to the context. We carried out the first large-scale, cross-national study to explore the implications of removing this excessiveness requirement.
Methods
Data come from the World Health Organization World Mental Health Survey Initiative. A total of 133 614 adults from 12 surveys in Low- or Middle-Income Countries (LMICs) and 16 surveys in High-Income Countries (HICs) were assessed with the Composite International Diagnostic Interview. Non-excessive worriers meeting all other DSM-5 criteria for GAD were compared to respondents meeting all criteria for GAD, and to respondents without GAD, on clinically-relevant correlates.
Results
Removing the excessiveness requirement increases the global lifetime prevalence of GAD from 2.6% to 4.0%, with larger increases in LMICs than HICs. Non-excessive and excessive GAD cases worry about many of the same things, although non-excessive cases worry more about health/welfare of loved ones, and less about personal or non-specific concerns, than excessive cases. Non-excessive cases closely resemble excessive cases in socio-demographic characteristics, family history of GAD, and risk of temporally secondary comorbidity and suicidality. Although non-excessive cases are less severe on average, they report impairment comparable to excessive cases and often seek treatment for GAD symptoms.
Conclusions
Individuals with non-excessive worry who meet all other DSM-5 criteria for GAD are clinically significant cases. Eliminating the excessiveness requirement would lead to a more defensible GAD diagnosis.
Commentary of ‘Elemental psychopathology: distilling constituent symptoms and patterns of repetition in the diagnostic criteria of the DSM-5’ Vincent P. Martin 1, Régis Lopez 2,3, Jean-Arthur Micoulaud-Franchi 4,5, Christophe Gauld 4,6,*
Machine learning has revolutionized many fields, including science, healthcare, and business. It is also widely used in network data analysis. This chapter provides an overview of machine learning methods and how they can be applied to network data. Machine learning can be used to clean, process, and analyze network data, as well as make predictions about networks and network attributes. Methods that transform networks into meaningful representations are especially useful for specific network prediction tasks, such as classifying nodes and predicting links. The challenges of using machine learning with network data include recognizing data leakage and detecting dataset shift. As with all machine learning, effective use of machine learning on networks depends on practicing good data hygiene when evaluating a predictive model’s performance.
Chapter 3 provides an overview of all elements of the predictive modeling process, from the selection of training and test data sets, parallel multivariate feature selection experiments and deciding on an optimal multivariate biomarker, to building, tuning, validating, and testing predictive models implementing the optimal biomarker. Discussed are also such topics as bias-variance tradeoff, segmentation models, and committees of predictive models.
Chapter 10 covers the random forests algorithm for classification. Presented are also the impurity metrics applicable to splitting nodes in classification trees (Gini, entropy, and misclassification impurity), as well as permutation-based and impurity-based variable importance measures.
Multivariate biomarker discovery is increasingly important in the realm of biomedical research, and is poised to become a crucial facet of personalized medicine. This will prompt the demand for a myriad of novel biomarkers representing distinct 'omic' biosignatures, allowing selection and tailoring treatments to the various individual characteristics of a particular patient. This concise and self-contained book covers all aspects of predictive modeling for biomarker discovery based on high-dimensional data, as well as modern data science methods for identification of parsimonious and robust multivariate biomarkers for medical diagnosis, prognosis, and personalized medicine. It provides a detailed description of state-of-the-art methods for parallel multivariate feature selection and supervised learning algorithms for regression and classification, as well as methods for proper validation of multivariate biomarkers and predictive models implementing them. This is an invaluable resource for scientists and students interested in bioinformatics, data science, and related areas.
Recent conceptualisations of bilingualism are moving away from strict categorisations, towards continuous approaches. This study supports this trend by combining empirical psycholinguistics data with machine learning classification modelling. Support vector classifiers were trained on two datasets of coded productions by Italian speakers to predict the class they belonged to (“monolingual”, “attriters” and “heritage”). All classes can be predicted above chance (>33%), even if the classifier's performance substantially varies, with monolinguals identified much better (f-score >70%) than attriters (f-score <50%), which are instead the most confusable class. Further analyses of the classification errors expressed in the confusion matrices qualify that attriters are identified as heritage speakers nearly as often as they are correctly classified. Cluster clitics are the most identifying features for the classification performance. Overall, this study supports a conceptualisation of bilingualism as a continuum of linguistic behaviours rather than sets of a priori established classes.
Chapter 17 considers Goethe’s extensive collections, which ranged in subject matter from art and ethnography to natural history and scientific instruments, and also included a vast library. It uses the period around his Italian journey (1786–8), when his involvement with art and art objects was particularly intense, to highlight tensions within his approach to collecting which apply throughout his career as a collector. The chapter also addresses the complexity of classifying Goethe’s collections, owing to their scale and diversity, and to the variety of his own collecting habits.
Edited by
Allan Young, Institute of Psychiatry, King's College London,Marsal Sanches, Baylor College of Medicine, Texas,Jair C. Soares, McGovern Medical School, The University of Texas,Mario Juruena, King's College London
The concept of abnormal mood has been a matter of a millennia-long debate in philosophy and medicine, while the diagnosis and classification of mood disorders remains a complex and controversial issue even in modern psychiatry. A centrepiece of this debate is the conceptualisation of mood and, by extension, mood disorders as a multi-dimensional spectrum with transdiagnostic symptoms (i.e., a continuous diagnostic classification) or as discrete nosological entities (i.e., a categorical diagnostic classification). Theoretical models and arguments based on empirical evidence have been proposed for both the distinct categorisation of abnormal mood states and the affective continuum perspective, which may also encompass psychosis and psychotic disorders. Although the conceptualisation of mood as a spectrum ranging from unipolar depression to unipolar mania may be the most suitable, this approach requires further evidence before it can replace the categorical classifications firmly employed in clinical practice for more than a century.
Edited by
Allan Young, Institute of Psychiatry, King's College London,Marsal Sanches, Baylor College of Medicine, Texas,Jair C. Soares, McGovern Medical School, The University of Texas,Mario Juruena, King's College London
In his book General Psychopathology, first published in 1913, Jaspers presented a methodological framework for exploring the phenomenology of symptoms of psychiatric disorders as well as relating experimental psychology and nosology to phenomenology. This chapter briefly introduces the phenomenological approach to symptoms and how this has influenced symptom- as opposed to diagnostic criterion-based assessment instruments, such as those based on the diagnostic statistical manual. A transcultural and historical perspective is employed to identify relevant symptoms of mood disorders and their temporal course. Descriptions and definitions of classical symptoms are provided and extended based on modern evidence to include changes in self-imagery, moral emotions, self-blame-related action tendencies, as well as mood-congruent biases in the representation of the past and future. Lastly the contribution of psychopathology to future subsyndrome discovery, translational cognitive neuroscience, and network-based approaches to the psychopathology of mood disorders is discussed.
Edited by
Allan Young, Institute of Psychiatry, King's College London,Marsal Sanches, Baylor College of Medicine, Texas,Jair C. Soares, McGovern Medical School, The University of Texas,Mario Juruena, King's College London
‘Psychotic disorders’ is an umbrella term for psychiatric conditions featuring psychosis, including mood disorders. Despite the prominence of psychotic symptoms across the psychotic spectrum, a distinction between schizophrenia and affective psychoses has been historically established. Findings from genetic studies support the aetiological overlap between affective and non-affective psychosis, although poor characterisation of the schizoaffective population still poses a challenge. Likewise, literature points to shared environmental risk factors between bipolar disorder and schizophrenia. Neuroimaging evidence suggest significant similarities in the pathophysiology of the brain between affective and non-affective psychosis. An overlap is also observed in other biological and behavioural illness markers, as well as in the pharmacotherapy of psychotic disorders. Current diagnostic entities may not accurately delineate the aetiology and pathophysiology of these conditions. Modern classification approaches, such as the RDoC framework, propose the adoption of aetiological factors and pathophysiological evidence to characterise patients, rather than categorical diagnoses based on symptoms.
In many applications, dimensionality reduction is important. Uses of dimensionality reduction include visualization, removing noise, and decreasing compute and memory requirements, such as for image compression. This chapter focuses on low-rank approximation of a matrix. There are theoretical models for why big matrices should be approximately low rank. Low-rank approximations are also used to compress large neural network models to reduce computation and storage. The chapter begins with the classic approach to approximating a matrix by a low-rank matrix, using a nonconvex formulation that has a remarkably simple singular value decomposition solution. It then applies this approach to the source localization application via the multidimensional scaling method and to the photometric stereo application. It then turns to convex formulations of low-rank approximation based on proximal operators that involve singular value shrinkage. It discusses methods for choosing the rank of the approximation, and describes the optimal shrinkage method called OptShrink. It discusses related dimensionality reduction methods including (linear) autoencoders and principal component analysis. It applies the methods to learning low-dimensionality subspaces from training data for subspace-based classification problems. Finally, it extends the method to streaming applications with time-varying data. This chapter bridges the classical singular value decomposition tool with modern applications in signal processing and machine learning.
We present a fully-automated workflow to map sea ice types from Sentinel-1 data and transfer the results in near real-time to the research vessel Kronprins Haakon (KPH) in order to support tactical navigation and decision-making during a research cruise conducted towards Belgica Bank in April and May 2022. We used overlapping SAR and optical imagery to train a pixel-wise classifier for the required season and region, and implemented a processing chain with the Norwegian Ice Service at MET Norway that automatically classifies all Sentinel-1 images covering the area of interest. During the cruise, classification results were available on KPH within hours after image acquisition, which is significantly faster than manually produced ice charts. We evaluate the results both quantitatively, based on manually selected validation regions, and qualitatively in comparison to in-situ observations and photographs. Our findings show that open water, level ice, and deformed ice are classified with high accuracy, while young ice remains challenging due to its variable small-scale surface roughness. This work presents one of the first attempts to transfer automated ice type classification results into the field in near real-time and contributes to bridging the gap between research and operations in automated sea ice mapping.
A Microsoft® Visual Basic software, WinClbclas, has been developed to calculate the chemical formulae of columbite-supergroup minerals based on data obtained from wet-chemical and electron-microprobe analyses and using the current nomenclature scheme adopted by the Commission on New Minerals, Nomenclature and Classification (CNMNC) of the International Mineralogical Association (IMA) for columbite-supergroup minerals. The program evaluates 36 IMA-approved species, three questionable in terms of their unit-cell parameters, four insufficiently studied questionable species and one ungrouped species, all according to the dominant valance and constituent status in five mineral groups including ixiolite (MO2), wolframite (M1M2O4), samarskite (ABM2O8), columbite (M1M2O6) and wodginite (M1M2M32O8). Mineral compositions of the columbite supergroup are calculated on the basis of 24 oxygen atoms per formula unit. However, the formulae of the five ixiolite to wodginite groups can be estimated by the program on the basis of their cation and anion values in their typical mineral formulae (e.g. 4 cations and 8 oxygens for the wodginite group) with normalisation procedures. The Fe3+ and Fe2+ contents from microprobe-derived total FeO (wt.%) amounts are estimated by stoichiometric constraints. WinClbclas allows users to: (1) enter up to 47 input variables for mineral compositions; (2) type and load multiple columbite-supergroup mineral compositions in the data entry section; (3) edit and load the Microsoft® Excel files used in calculating, classifying, and naming the columbite-supergroup minerals, together with the total monovalent to hexavalent ion; and (4) store all the calculated parameters in the output of a Microsoft® Excel file for further data evaluation. The program is distributed as a self-extracting setup file, including the necessary support files used by the program, a help file and representative sample data files.
This paper provides a new classification of Central–Southern Italian dialects using dialectometric methods. All varieties considered are analyzed and cast in a data set where homogeneous areas are evaluated according to a selected list of phonetic features. Using numerical evaluation of these features and the Manhattan distance, a linguistic distance rule is defined. On this basis, the classification problem is formulated as a clustering problem, and a k-means algorithm is used. Additionally, an ad-hoc rule is set to identify transitional areas, and silhouette analysis is used to select the most appropriate number of clusters. While meaningful results are obtained for each number of clusters, a nine-group classification emerges as the most appropriate. As the results suggest, this classification is less subjective, more precise, and more comprehensive than traditional ones based on selected isoglosses.
Edited by
David Kingdon, University of Southampton,Paul Rowlands, Derbyshire Healthcare NHS foundation Trust,George Stein, Emeritus of the Princess Royal University Hospital
Personality disorder represents a diagnosis very different from others in psychiatry. This is because it describes a long-standing integral part of a person, not just an affliction that has happened. Because of the sensitivity of ascribing a core part of a person’s being to the impersonality of a diagnostic term, the subject has been widely stigmatised. However, the condition is very common and affects one-tenth of the population. In this chapter, the clinical features of personality disorder identified in the new ICD-11 severity classification are described and their value illustrated. A fuller description of the ICD-11 classification can be found in another College publication.
There are five levels of diagnosis of personality disorder, including the sub-syndromal form – personality difficulty – which is by far the most common. The diagnosis of borderline personality disorder is the most used in practice but is a heterogeneous term that overlaps with almost every other disorder in psychiatry. All personality disorders have approximately equal genetic and environmental precursors, and the involvement of childhood adverse experiences and trauma is unfortunately true for this as for all psychiatric disorders.
Edited by
David Kingdon, University of Southampton,Paul Rowlands, Derbyshire Healthcare NHS foundation Trust,George Stein, Emeritus of the Princess Royal University Hospital
Depressive disorders have been recognised since antiquity, although how they have been described and understood has changed considerably over time. In this chapter, we outline key aspects of the history of depression as well as some of the limitations in its current classification in ICD-11 and DSM-5. We describe the range of symptoms experienced in depressive disorders, together with the recognised variations in clinical presentation and how these are conceptualised and classified. The relationship between depression and related disorders including anxiety disorders, premenstrual dysphoric disorder and grief is discussed, as well as boundary issues with bipolar disorder and primary psychotic disorders. We review current knowledge about depression’s considerable psychiatric and medical comorbidity, along with its epidemiology, natural history and health burden. A brief practical guide to assessing depressive disorders is given, together with rating scales that are useful for clinical assessment and monitoring.