The Trending Customer Needs (TCN) Dataset: A Benchmarking and Automated Evaluation Approach for New Product Development

In recent years, there have been many studies which summarize User Generated Content as lists of ranked keyphrases representing customer needs for the purposes of New Product Development. However, methods for the evaluation of keyphrase lists do not robustly assess solutions for these purposes. Therefore, in this paper we present the “Trending Customer Needs” (TCN) dataset of over 9000 top trending customer need keyphrases organized by month from 2007-2021 which spans 37 product categories in the area of Consumer Packaged Goods (e.g. toothpaste, eyeliner, beer etc.). TCN is a curated dataset for the benchmarking of supervised machine learning approaches in the prediction of customer needs using User Generated Content. We describe the process of curating TCN while ensuring its quality. Finally, we demonstrate its utility via a case study of Reddit discourse as a potential predictor for future customer needs in Consumer Packaged Goods

Information retrieval and text mining technologies for chemistry

Efficient access to chemical information contained in scientific literature, patents, technical reports, or the web is a pressing need shared by researchers and patent attorneys from different chemical disciplines. Retrieval of important chemical information in most cases starts with finding relevant documents for a particular chemical compound or family. Targeted retrieval of chemical documents is closely connected to the automatic recognition of chemical entities in the text, which commonly involves the extraction of the entire list of chemicals mentioned in a document, including any associated information. In this Review, we provide a comprehensive and in-depth description of fundamental concepts, technical implementations, and current technologies for meeting these information demands. A strong focus is placed on community challenges addressing systems performance, more particularly CHEMDNER and CHEMDNER patents tasks of BioCreative IV and V, respectively. Considering the growing interest in the construction of automatically annotated chemical knowledge bases that integrate chemical information and biological data, cheminformatics approaches for mapping the extracted chemical names into chemical structures and their subsequent annotation together with text mining applications for linking chemistry with biological information are also presented. Finally, future trends and current challenges are highlighted as a roadmap proposal for research in this emerging field.A.V. and M.K. acknowledge funding from the European Community’s Horizon 2020 Program (project reference: 654021 - OpenMinted). M.K. additionally acknowledges the Encomienda MINETAD-CNIO as part of the Plan for the Advancement of Language Technology. O.R. and J.O. thank the Foundation for Applied Medical Research (FIMA), University of Navarra (Pamplona, Spain). This work was partially funded by Consellería de Cultura, Educación e Ordenación Universitaria (Xunta de Galicia), and FEDER (European Union), and the Portuguese Foundation for Science and Technology (FCT) under the scope of the strategic funding of UID/BIO/04469/2013 unit and COMPETE 2020 (POCI-01-0145-FEDER-006684). We thank Iñigo Garciá -Yoldi for useful feedback and discussions during the preparation of the manuscript.info:eu-repo/semantics/publishedVersio

Statistical Data Modeling and Machine Learning with Applications

The modeling and processing of empirical data is one of the main subjects and goals of statistics. Nowadays, with the development of computer science, the extraction of useful and often hidden information and patterns from data sets of different volumes and complex data sets in warehouses has been added to these goals. New and powerful statistical techniques with machine learning (ML) and data mining paradigms have been developed. To one degree or another, all of these techniques and algorithms originate from a rigorous mathematical basis, including probability theory and mathematical statistics, operational research, mathematical analysis, numerical methods, etc. Popular ML methods, such as artificial neural networks (ANN), support vector machines (SVM), decision trees, random forest (RF), among others, have generated models that can be considered as straightforward applications of optimization theory and statistical estimation. The wide arsenal of classical statistical approaches combined with powerful ML techniques allows many challenging and practical problems to be solved. This Special Issue belongs to the section “Mathematics and Computer Science”. Its aim is to establish a brief collection of carefully selected papers presenting new and original methods, data analyses, case studies, comparative studies, and other research on the topic of statistical data modeling and ML as well as their applications. Particular attention is given, but is not limited, to theories and applications in diverse areas such as computer science, medicine, engineering, banking, education, sociology, economics, among others. The resulting palette of methods, algorithms, and applications for statistical modeling and ML presented in this Special Issue is expected to contribute to the further development of research in this area. We also believe that the new knowledge acquired here as well as the applied results are attractive and useful for young scientists, doctoral students, and researchers from various scientific specialties

Discovering lesser known molecular players and mechanistic patterns in Alzheimer's disease using an integrative disease modelling approach

Convergence of exponentially advancing technologies is driving medical research with life changing discoveries. On the contrary, repeated failures of high-profile drugs to battle Alzheimer's disease (AD) has made it one of the least successful therapeutic area. This failure pattern has provoked researchers to grapple with their beliefs about Alzheimer's aetiology. Thus, growing realisation that Amyloid-β and tau are not 'the' but rather 'one of the' factors necessitates the reassessment of pre-existing data to add new perspectives. To enable a holistic view of the disease, integrative modelling approaches are emerging as a powerful technique. Combining data at different scales and modes could considerably increase the predictive power of the integrative model by filling biological knowledge gaps. However, the reliability of the derived hypotheses largely depends on the completeness, quality, consistency, and context-specificity of the data. Thus, there is a need for agile methods and approaches that efficiently interrogate and utilise existing public data. This thesis presents the development of novel approaches and methods that address intrinsic issues of data integration and analysis in AD research. It aims to prioritise lesser-known AD candidates using highly curated and precise knowledge derived from integrated data. Here much of the emphasis is put on quality, reliability, and context-specificity. This thesis work showcases the benefit of integrating well-curated and disease-specific heterogeneous data in a semantic web-based framework for mining actionable knowledge. Furthermore, it introduces to the challenges encountered while harvesting information from literature and transcriptomic resources. State-of-the-art text-mining methodology is developed to extract miRNAs and its regulatory role in diseases and genes from the biomedical literature. To enable meta-analysis of biologically related transcriptomic data, a highly-curated metadata database has been developed, which explicates annotations specific to human and animal models. Finally, to corroborate common mechanistic patterns — embedded with novel candidates — across large-scale AD transcriptomic data, a new approach to generate gene regulatory networks has been developed. The work presented here has demonstrated its capability in identifying testable mechanistic hypotheses containing previously unknown or emerging knowledge from public data in two major publicly funded projects for Alzheimer's, Parkinson's and Epilepsy diseases

A clinician’s guide to understanding and critically appraising machine learning studies: a checklist for Ruling Out Bias Using Standard Tools in Machine Learning (ROBUST-ML)

Developing functional machine learning (ML)-based models to address unmet clinical needs requires unique considerations for optimal clinical utility. Recent debates about the rigours, transparency, explainability, and reproducibility of ML models, terms which are defined in this article, have raised concerns about their clinical utility and suitability for integration in current evidence-based practice paradigms. This featured article focuses on increasing the literacy of ML among clinicians by providing them with the knowledge and tools needed to understand and critically appraise clinical studies focused on ML. A checklist is provided for evaluating the rigour and reproducibility of the four ML building blocks: data curation, feature engineering, model development, and clinical deployment. Checklists like this are important for quality assurance and to ensure that ML studies are rigourously and confidently reviewed by clinicians and are guided by domain knowledge of the setting in which the findings will be applied. Bridging the gap between clinicians, healthcare scientists, and ML engineers can address many shortcomings and pitfalls of ML-based solutions and their potential deployment at the bedside