Bioinformatics and Biomedical Engineering : 10th International Work-Conference, IWBBIO 2023, Meloneras, Gran Canaria, Spain, July 12–14, 2023, Proceedings, Part I / / edited by Ignacio Rojas, Olga Valenzuela, Fernando Rojas Ruiz, Luis Javier Herrera, Francisco Ortuño

• Autore: Rojas Ignacio
• Pubblicazione: Cham : , : Springer Nature Switzerland : , : Imprint : Springer, , 2023
• Edizione: 1st ed. 2023.
• Descrizione fisica: 1 online resource (588 pages)
• Disciplina: 570.285; 610.28
• Soggetto topico: Bioinformatics; Computer networks; Engineering - Data processing; Biomedical engineering; Computational and Systems Biology; Computer Communication Networks; Data Engineering; Biomedical Engineering and Bioengineering
• Altri autori: ValenzuelaOlga Rojas RuizFernando HerreraLuis Javier OrtuñoFrancisco
• Nota di contenuto: Intro -- Preface -- Organization -- Contents - Part I -- Contents - Part II -- Analysis of Molecular Dynamics Data in Proteomics -- Recognition of Conformational States of a G Protein-Coupled Receptor from Molecular Dynamic Simulations Using Sampling Techniques -- 1 Introduction -- 2 Materials and Methods -- 2.1 Class Imbalance Correction Methods -- 2.2 Experimental Setup -- 2.3 Evaluation Metrics for Imbalanced Data Problems -- 3 Results and Discussion -- 3.1 Interpretation Results -- 4 Conclusions -- References -- Identification of InhA-Inhibitors Interaction Fingerprints that Affect Residence Time -- 1 Introduction -- 1.1 Ligand-Receptor Binding Kinetics -- 1.2 Computer Methods to Determine Binding Kinetic Parameters -- 1.3 Research Objective -- 2 Mycobacterium Enoyl Acyl Carrier Protein Reductase (InhA) -- 3 Methods -- 4 Results -- 4.1 Ligand Similarity -- 4.2 Drug-Like Ligand Properties that Affect Residence Time -- 5 Discussion and Conclusions -- References -- Bioinformatics -- Validation of Height-for-Age and BMI-for-Age Z-scores Assessment Using Android-Based Mobile Apps -- 1 Introduction -- 2 Methods -- 2.1 Subjects -- 2.2 Anthropometric Measurements -- 2.3 Z-score Calculation -- 2.4 Statistical Analysis -- 3 Outcomes -- 4 Discussion -- 5 Conclusion -- 6 Limitations -- References -- An Algorithm for Pairwise DNA Sequences Alignment -- 1 Introduction -- 2 Related Work -- 3 An Algorithm for Pairwise DNA Sequences Alignment Based on the Proposed CAT Method -- 4 Experimental Results and Analysis -- 4.1 Implementation of the Proposed Method CAT for Sequences Alignment -- 4.2 Collision Analysis -- 4.3 Performance Analysis -- 5 Conclusion -- References -- Multiallelic Maximal Perfect Haplotype Blocks with Wildcards via PBWT -- 1 Introduction -- 2 Finding Maximal Blocks with Wildcards -- 3 The Algorithm. ; 3.1 Positional BWT Extended to Wildcards -- 3.2 Building the Extended PBWT -- 3.3 Computing the Maximal Blocks -- 4 Experimental Results -- 5 Conclusions -- References -- GPU Cloud Architectures for Bioinformatic Applications -- 1 Introduction -- 2 GPU Usage in Bioinformatics -- 3 Processing Outsourcing -- 4 GPU Virtualisation in Cloud Architectures -- 5 Architecture Characteristics -- 6 Experiments -- 7 Conclusions -- References -- Biomarker Identification -- Novel Gene Signature for Bladder Cancer Stage Identification -- 1 Introduction -- 2 Data Description -- 3 Metodology -- 3.1 Differential Expressed Genes Extraction and Visualization -- 3.2 Development of Classification Models -- 4 Results and Discussion -- 4.1 Gene Enrichment -- 5 Conclusions -- References -- Predicting Cancer Stage from Circulating microRNA: A Comparative Analysis of Machine Learning Algorithms -- 1 Introduction -- 2 Materials and Methods -- 2.1 Study Cohort -- 2.2 Algorithms -- 2.3 Evaluation Metrics -- 2.4 Experimental Design -- 2.5 Statistical Analysis -- 3 Results -- 4 Discussion -- 5 Conclusion -- 6 Ethical Statement -- 7 Appendix -- References -- Gait Asymmetry Evaluation Using FMCW Radar in Daily Life Environments -- 1 Introduction -- 2 Methodology -- 2.1 Gait Parameters Definition -- 2.2 FMCW Radar Signal Processing -- 2.3 Extraction of Radar-Based Gait Parameters -- 3 Experimental Setup and Equipment -- 4 Experimental Results -- 4.1 Raw Data Visualization -- 4.2 Gait Parameters Extraction Results -- 5 Conclusion and Further Work -- References -- Biomedical Computing -- Whole Tumor Area Estimation in Incremental Brain MRI Using Dilation and Erosion-Based Binary Morphing -- 1 Introduction -- 2 Morphing Methods -- 3 Experiments -- 4 Results -- 5 Conclusions and Discussions -- References. ; Three-Dimensional Representation and Visualization of High-Grade and Low-Grade Glioma by Nakagami Imaging -- 1 Introduction -- 2 Nakagami Imaging -- 3 Highlighting Experiments -- 3.1 High-Grade Glioma Experiment -- 3.2 Low-Grade Glioma Experiment -- 4 Results -- 5 Conclusions and Discussions -- References -- Speeding up Simulations for Radiotherapy Research by Means of Machine Learning -- 1 Introduction -- 2 Problem Description -- 2.1 PENELOPE Simulator -- 3 Methodology: Data Generation with PENELOPE and Modeling the Output by Means of Machine Learning Algorithms -- 3.1 Data Generation -- 3.2 Models Evaluated and Hyperparameter Tunning -- 3.3 Implementation Details and Model Deployment -- 4 Experiments and Results -- 4.1 Multi-Output Regression -- 4.2 Single Output Regression -- 5 Conclusions -- References -- A Meta-Graph for the Construction of an RNA-Centered Knowledge Graph -- 1 Introduction -- 2 KG Construction from Bio-Medical Data Sources -- 3 RNA Molecules -- 4 RNA-Based Data Sources -- 5 A Meta-Graph Representing RNA-Centered Relationships -- 6 Concluding Remarks -- References -- Structural Analysis of RNA-Binding Protein EWSR1 Involved in Ewing's Sarcoma Through Domain Assembly and Conformational Molecular Dynamics Studies -- 1 Introduction -- 2 Computational Methodology -- 2.1 Retrieval of Human EWSR1 Sequence and Alignment -- 2.2 EWSR1 Conserved Sequence Analysis -- 2.3 Structure Prediction of Human EWSR1 -- 2.4 Prediction of RNA Motifs Interacting with EWSR1 -- 2.5 Molecular Docking -- 2.6 Molecular Dynamics (MD) Simulations -- 3 Results -- 3.1 Structural Analysis of Predicted EWSR1 -- 3.2 Docking Energy Evaluation -- 3.3 Binding Pocket Conformational and Interaction Analysis -- 3.4 Root Mean Square Deviation Analysis -- 3.5 Radius of Gyration and Solvent Accessible Surface Area -- 4 Conclusion -- References. ; Pharmacoinformatic Analysis of Drug Leads for Alzheimer's Disease from FDA-Approved Dataset Through Drug Repositioning Studies -- 1 Introduction -- 2 Computational Methodology -- 2.1 Retrieval of MADD Sequence and Protein Modelling -- 2.2 Structure Analysis of MADD Protein -- 2.3 Virtual Screening of Chemical Scaffolds -- 2.4 Active Binding Site of MADD Protein and Docking -- 2.5 Designing of Pharmacogenomics Networks -- 2.6 Molecular Dynamics (MD) Simulations -- 3 Results and Discussion -- 3.1 Predicted Model of MADD Protein -- 3.2 VADAR and Galaxy Refine Analysis -- 3.3 Binding Pocket Analysis of MADD Protein -- 3.4 Shape Based Screening and PyRx Docking -- 3.5 Pharmacogenomics Analysis -- 4 Molecular Docking Using Autodock -- 4.1 Docking Energy Analysis Against Death Domain of MADD -- 4.2 Binding Interaction Profile -- 5 Molecular Dynamic Simulations -- 5.1 Root Mean Square Deviation and Rg Analysis -- 6 Conclusions -- References -- Biomedical Engineering -- Motion Control of a Robotic Lumbar Spine Model -- 1 Introduction -- 2 Related Work -- 3 Kinematics -- 4 Dynamic Model -- 5 PID Controller -- 6 Simulation and Results -- 7 Conclusions -- References -- Annotation-Free Identification of Potential Synteny Anchors -- 1 Background -- 2 Theory and Algorithmic Considerations -- 3 Results -- 3.1 Summary Statistics of Anchor Candidates -- 3.2 Evaluation of Anchor Candidates -- 3.3 Mapping of Anchors Candidates Across Genomes -- 3.4 Two Showcase Applications -- 3.5 Computational Effort -- 4 Discussion and Outlook -- A Genomes Used in this Contribution -- References -- Analysing Dose Parameters of Radiation Therapy Treatment Planning and Estimation of Their Influence on Secondary Cancer Risks -- 1 Introduction -- 2 Materials and Methods -- 2.1 Patient Selection -- 2.2 Treatment Planning -- 3 Results and Discussion -- 4 Conclusion -- References. ; A Platform for the Radiomic Analysis of Brain FDG PET Images: Detecting Alzheimer's Disease -- 1 Introduction -- 2 Methods -- 2.1 Participants and Data -- 2.2 PET Acquisition -- 2.3 ROI Extraction -- 2.4 Feature Extraction -- 2.5 Feature Selection -- 2.6 Classification and Tuning -- 2.7 Computational Hardware and Software -- 3 Results -- 4 Discussion -- 5 Conclusion -- References -- Biomedical Signal Analysis -- Deep Learning for Automatic Electroencephalographic Signals Classification -- 1 Introduction -- 2 Methodology -- 2.1 Description of EEG Data -- 2.2 EEG Signal Preprocessing -- 2.3 Feature Extraction -- 2.4 Classification -- 3 Results and Discussions -- 3.1 Evaluation -- 4 Conclusions and Future Work -- References -- Evaluation of Homogeneity of Effervescent Tablets Containing Quercetin and Calcium Using X-ray Microtomography and Hyperspectral Analysis -- 1 Introduction -- 2 Materials and Methods -- 2.1 Tablets Selected for Analysis -- 2.2 Evaluation of the Tablets -- 2.3 Hyperspectral Imaging -- 2.4 X-ray Microtomography -- 2.5 Statistical Analysis -- 3 Results -- 3.1 Characteristics of the Tablets -- 3.2 The Analysis of Tablets' Homogeneity Using Hyperspectral Imaging -- 3.3 The Analysis of Inner Homogeneity Using X-ray Microtomography -- 4 Discussion -- 5 Conclusion -- References -- The Effect of Biofeedback on Learning the Wheelie Position on Manual Wheelchair -- 1 Introduction -- 2 Material and Methods -- 2.1 Subjects and Study Design -- 2.2 Materials -- 2.3 Methods -- 2.4 Statistical Analysis -- 3 Results -- 4 Discussion -- 5 Conclusion -- References -- Preliminary Study on the Identification of Diseases by Electrocardiography Sensors' Data -- 1 Introduction -- 2 Methods -- 2.1 Study Design and Participants -- 2.2 Feature Extraction -- 2.3 Data Classification -- 3 Results -- 4 Discussion and Conclusions -- References. ; Computational Proteomics.
• Sommario/riassunto: This volume constitutes the proceedings of the 10th International Work-Conference on IWBBIO 2023, held in Meloneras, Gran Canaria, Spain, during July 12-14, 2022. The total of 79 papers presented in the proceedings, was carefully reviewed and selected from 209 submissions. The papers cove the latest ideas and realizations in the foundations, theory, models, and applications for interdisciplinary and multidisciplinary research encompassing disciplines of computer science, mathematics, statistics, biology, bioinformatics, and biomedicine.
• Titolo autorizzato: Bioinformatics and Biomedical Engineering
• ISBN: 3-031-34953-9
• Formato: Materiale a stampa
• Livello bibliografico: Monografia
• Lingua di pubblicazione: Inglese
• Record Nr.: 9910734840903321
• Lo trovi qui: Univ. Federico II
• Serie: Lecture Notes in Bioinformatics, . 2366-6331 ; ; 13919