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One of the grand challenges in our digital world are the large, complex and often weakly structured data sets, and massive amounts of unstructured information. This "big data" challenge is most evident in biomedical informatics: the trend towards precision medicine has resulted in an explosion in the amount of generated biomedical data sets. Despite the fact that human experts are very good at pattern recognition in dimensions of <= 3; most of the data is high-dimensional, which makes manual analysis often impossible and neither the medical doctor nor the biomedical researcher can memorize all these facts. A synergistic combination of methodologies and approaches of two fields offer ideal conditions towards unraveling these problems: Human-Computer Interaction (HCI) and Knowledge Discovery/Data Mining (KDD), with the goal of supporting human capabilities with machine learning.
This state-of-the-art survey is an output of the HCI-KDD expert network and features 19 carefully selected and reviewed papers related to seven hot and promising research areas: Area 1: Data Integration, Data Pre-processing and Data Mapping; Area 2: Data Mining Algorithms; Area 3: Graph-based Data Mining; Area 4: Entropy-Based Data Mining; Area 5: Topological Data Mining; Area 6 Data Visualization and Area 7: Privacy, Data Protection, Safety and Security.
List of contents
Knowledge Discovery and Data Mining in Biomedical Informatics: The Future Is in Integrative, Interactive Machine Learning Solutions.- Visual Data Mining: Effective Exploration of the Biological Universe.- Darwin or Lamarck? Future Challenges in Evolutionary Algorithms for Knowledge Discovery and Data Mining.- On the Generation of Point Cloud Data Sets: Step One in the Knowledge Discovery Process.- Adapted Features and Instance Selection for Improving Co-training.- Knowledge Discovery and Visualization of Clusters for Erythromycin Related Adverse Events in the FDA Drug Adverse Event Reporting System.- On Computationally-Enhanced Visual Analysis of Heterogeneous Data and Its Application in Biomedical Informatics.- A Policy-Based Cleansing and Integration Framework for Labour and Healthcare Data.- Interactive Data Exploration Using Pattern Mining.- Resources for Studying Statistical Analysis of Biomedical Data and R.- A Kernel-Based Framework for Medical Big-Data Analytics.- On Entropy-Based Data Mining.- Sparse Inverse Covariance Estimation for Graph Representation of Feature Structure.- Multi-touch Graph-Based Interaction for Knowledge Discovery on Mobile Devices: State-of-the-Art and Future Challenges.- Intelligent Integrative Knowledge Bases: Bridging Genomics, Integrative Biology and Translational Medicine.- Biomedical Text Mining: State-of-the-Art, Open Problems and Future Challenges.- Protecting Anonymity in Data-Driven Biomedical Science.- Biobanks - A Source of Large Biological Data Sets: Open Problems and Future Challenges.- On Topological Data Mining.
About the author
Ing. Mag. rer. nat. Mag. phil. Dr. phil. Andreas Holzinger, geb. 1963 in Graz, Radio- und Fernsehtechniker, Industrietätigkeit in der Informationstechnik, Werkmeister für Industrielle Elektronik und Lehrlingsausbilderprüfung. College of Further Education Bournemouth (England) mit Schwerpunkt Computertechnik. Studien der Nachrichtentechnik, Physik und Psychologie sowie Medienpädagogik und Soziologie an der TU und Uni Graz. Promotion mit 'summa cum laude' auf dem Gebiet der Kognitionswissenschaft. Hochschullehrer am Institut für Informationsverarbeitung und computergestützte neue Medien der TU-Graz. Vorstandsassistent am Institut für medizinische Informatik, Statistik und Dokumentation. Konsulent des österreichischen Wissenschaftsministeriums. Österreichischer Experte in der Europäischen Union im Bereich Multimedia (eEurope). Dr. Holzinger forscht, arbeitet und lehrt in den Gebieten: Informationssysteme, Multimedia, Human-Computer-Interaction, Internet/Intranet, Intelligente Tutorielle Systeme.
Summary
One of the grand challenges in our digital world are the large, complex and often weakly structured data sets, and massive amounts of unstructured information. This “big data” challenge is most evident in biomedical informatics: the trend towards precision medicine has resulted in an explosion in the amount of generated biomedical data sets. Despite the fact that human experts are very good at pattern recognition in dimensions of <= 3; most of the data is high-dimensional, which makes manual analysis often impossible and neither the medical doctor nor the biomedical researcher can memorize all these facts. A synergistic combination of methodologies and approaches of two fields offer ideal conditions towards unraveling these problems: Human–Computer Interaction (HCI) and Knowledge Discovery/Data Mining (KDD), with the goal of supporting human capabilities with machine learning.
This state-of-the-art survey is an output of the HCI-KDD expert network and features 19 carefully selected and reviewed papers related to seven hot and promising research areas: Area 1: Data Integration, Data Pre-processing and Data Mapping; Area 2: Data Mining Algorithms; Area 3: Graph-based Data Mining; Area 4: Entropy-Based Data Mining; Area 5: Topological Data Mining; Area 6 Data Visualization and Area 7: Privacy, Data Protection, Safety and Security.
