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Bioinformatics research and applications : 18th International Symposium, ISBRA 2022, Haifa, Israel, November 14-17, 2022, proceedings / / edited by Mukul S. Bansal, Zhipeng Cai, Serghei Mangul
Bioinformatics research and applications : 18th International Symposium, ISBRA 2022, Haifa, Israel, November 14-17, 2022, proceedings / / edited by Mukul S. Bansal, Zhipeng Cai, Serghei Mangul
Edizione [1st ed. 2022.]
Pubbl/distr/stampa Cham, Switzerland : , : Springer, , [2022]
Descrizione fisica 1 online resource (404 pages)
Disciplina 170
Collana Lecture Notes in Bioinformatics
Soggetto topico Bioinformatics
ISBN 3-031-23198-8
Formato Materiale a stampa
Livello bibliografico Monografia
Lingua di pubblicazione eng
Nota di contenuto MLMVFE: A Machine Learning Approach Based on Muli-View Features Extraction for Drug-Disease Associations Prediction -- STgcor: A Distribution-based Correlation Measurement Method for Spatial Transcriptome Data -- Automatic ICD Coding based on Multi-granularity Feature Fusion -- Effectively Training MRI Reconstruction Network via Sequentially Using Undersampled k-Space Data with Very Low Frequency Gaps -- Fusing Label Relations for Chinese EMR Named Entity Recognition with Machine Reading Comprehension -- Private Epigenetic PaceMaker Detector using Homomorphic Encryption - Extended Abstract -- NIDN: Medical Code Assignment via Note-Code Interaction Denoising Network -- Research on the prediction method of disease classification based on imaging features -- M-US-EMRs: A Multi-Modal Data Fusion Method of Ultrasonic Images and Electronic Medical Records Used for Screening of Coronary Heart Disease -- Transposition Distance Considering Intergenic Regions for Unbalanced Genomes -- An SMT-based Framework for Reasoning about Discrete Biological Models -- ARGLRR: An Adjusted Random Walk Graph Regularization Sparse Low-rank Representation Method for Single-cell RNA-sequencing Data Clustering -- An Efficient and User-friendly Software for PCR Primer Design for Detection of Highly Variable Bacteria -- A Network-Based Voting Method for Identification and Prioritization of Personalized Cancer Driver Genes -- TDCOSR: A multimodality fusion framework for association analysis between genes and ROIs of Alzheimer’s disease -- Policy-based Hypertension Monitoring using Formal Runtime Verification Monitors -- Deep learning-enhanced MHC-II presentation prediction and peptidome deconvolution -- MMLN: Leveraging Domain Knowledge for Multimodal Diagnosis -- Optimal sequence alignment to ED-strings -- Heterogeneous PPI network representation learning for protein complex identification -- A Clonal Evolution Simulator for Planning Somatic Evolution Studies -- Prediction of Drug-disease Relationship on Heterogeneous Networks Based on Graph Convolution -- t-SNE Highlights Phylogenetic and Temporal Patterns of SARS-CoV-2 Spike and Nucleocapsid Protein Evolution -- MPCDDI: A Secure Multiparty Computation-based Deep Learning Framework for Drug-drug Interaction Predictions -- A Multimodal Data Fusion-based Deep Learning Approach for Drug-Drug Interaction Prediction -- GNN-Dom: an unsupervised method for protein domain partition via protein contact map -- A Locality-Constrained Linear Coding-Based Ensemble Learning Framework for Predicting Potentially Disease-Associated MiRNAs -- Gaussian-enhanced Representation Model for Extracting Protein-Protein Interactions Affected by Mutations -- Distance Profiles of Optimal RNA Foldings -- 2D Photogrammetry Image of Adolescent Idiopathic Scoliosis Screening Using Deep Learning -- EMRShareChain: A Privacy-Preserving EMR Sharing System Model Based on the Consortium Blockchain -- Simulating Spiking Neural Networks based on SW26010pro -- Entropy Based Clustering of Viral Sequences -- A Tensor Robust Model Based on Enhanced Tensor Nuclear Norm and Low-Rank Constraint for Multi-view Cancer Genomics Data.
Record Nr. UNISA-996503466103316
Cham, Switzerland : , : Springer, , [2022]
Materiale a stampa
Lo trovi qui: Univ. di Salerno
Opac: Controlla la disponibilità qui
Bioinformatics Research and Applications : 18th International Symposium, ISBRA 2022, Haifa, Israel, November 14–17, 2022, Proceedings / / edited by Mukul S. Bansal, Zhipeng Cai, Serghei Mangul
Bioinformatics Research and Applications : 18th International Symposium, ISBRA 2022, Haifa, Israel, November 14–17, 2022, Proceedings / / edited by Mukul S. Bansal, Zhipeng Cai, Serghei Mangul
Edizione [1st ed. 2022.]
Pubbl/distr/stampa Cham : , : Springer Nature Switzerland : , : Imprint : Springer, , 2022
Descrizione fisica 1 online resource (404 pages)
Disciplina 170
572.80285
Collana Lecture Notes in Bioinformatics
Soggetto topico Bioinformatics
Artificial intelligence
Computer networks
Computer engineering
Artificial Intelligence
Computer Communication Networks
Computer Engineering and Networks
ISBN 3-031-23198-8
Formato Materiale a stampa
Livello bibliografico Monografia
Lingua di pubblicazione eng
Nota di contenuto MLMVFE: A Machine Learning Approach Based on Muli-View Features Extraction for Drug-Disease Associations Prediction -- STgcor: A Distribution-based Correlation Measurement Method for Spatial Transcriptome Data -- Automatic ICD Coding based on Multi-granularity Feature Fusion -- Effectively Training MRI Reconstruction Network via Sequentially Using Undersampled k-Space Data with Very Low Frequency Gaps -- Fusing Label Relations for Chinese EMR Named Entity Recognition with Machine Reading Comprehension -- Private Epigenetic PaceMaker Detector using Homomorphic Encryption - Extended Abstract -- NIDN: Medical Code Assignment via Note-Code Interaction Denoising Network -- Research on the prediction method of disease classification based on imaging features -- M-US-EMRs: A Multi-Modal Data Fusion Method of Ultrasonic Images and Electronic Medical Records Used for Screening of Coronary Heart Disease -- Transposition Distance Considering Intergenic Regions for Unbalanced Genomes -- An SMT-based Framework for Reasoning about Discrete Biological Models -- ARGLRR: An Adjusted Random Walk Graph Regularization Sparse Low-rank Representation Method for Single-cell RNA-sequencing Data Clustering -- An Efficient and User-friendly Software for PCR Primer Design for Detection of Highly Variable Bacteria -- A Network-Based Voting Method for Identification and Prioritization of Personalized Cancer Driver Genes -- TDCOSR: A multimodality fusion framework for association analysis between genes and ROIs of Alzheimer’s disease -- Policy-based Hypertension Monitoring using Formal Runtime Verification Monitors -- Deep learning-enhanced MHC-II presentation prediction and peptidome deconvolution -- MMLN: Leveraging Domain Knowledge for Multimodal Diagnosis -- Optimal sequence alignment to ED-strings -- Heterogeneous PPI network representation learning for protein complex identification -- A Clonal Evolution Simulator for Planning Somatic Evolution Studies -- Prediction of Drug-disease Relationship on Heterogeneous Networks Based on Graph Convolution -- t-SNE Highlights Phylogenetic and Temporal Patterns of SARS-CoV-2 Spike and Nucleocapsid Protein Evolution -- MPCDDI: A Secure Multiparty Computation-based Deep Learning Framework for Drug-drug Interaction Predictions -- A Multimodal Data Fusion-based Deep Learning Approach for Drug-Drug Interaction Prediction -- GNN-Dom: an unsupervised method for protein domain partition via protein contact map -- A Locality-Constrained Linear Coding-Based Ensemble Learning Framework for Predicting Potentially Disease-Associated MiRNAs -- Gaussian-enhanced Representation Model for Extracting Protein-Protein Interactions Affected by Mutations -- Distance Profiles of Optimal RNA Foldings -- 2D Photogrammetry Image of Adolescent Idiopathic Scoliosis Screening Using Deep Learning -- EMRShareChain: A Privacy-Preserving EMR Sharing System Model Based on the Consortium Blockchain -- Simulating Spiking Neural Networks based on SW26010pro -- Entropy Based Clustering of Viral Sequences -- A Tensor Robust Model Based on Enhanced Tensor Nuclear Norm and Low-Rank Constraint for Multi-view Cancer Genomics Data.
Record Nr. UNINA-9910639891503321
Cham : , : Springer Nature Switzerland : , : Imprint : Springer, , 2022
Materiale a stampa
Lo trovi qui: Univ. Federico II
Opac: Controlla la disponibilità qui
Computational advances in bio and medical sciences : 11th international conference, ICCABS 2021, virtual event, December 16-18, 2021, revised selected papers / / edited by Mukul S. Bansal
Computational advances in bio and medical sciences : 11th international conference, ICCABS 2021, virtual event, December 16-18, 2021, revised selected papers / / edited by Mukul S. Bansal
Pubbl/distr/stampa Cham, Switzerland : , : Springer, , [2022]
Descrizione fisica 1 online resource (184 pages)
Disciplina 570.285
Collana Lecture Notes in Computer Science
Soggetto topico Bioinformatics
ISBN 3-031-17531-X
Formato Materiale a stampa
Livello bibliografico Monografia
Lingua di pubblicazione eng
Nota di contenuto Intro -- Preface -- Organization -- Contents -- Computational Advances in Bio and Medical Sciences -- Single Model Quality Estimation of Protein Structures via Non-negative Tensor Factorization -- 1 Introduction -- 2 Related Works -- 3 Methodology -- 3.1 Stage I: From Structures to Groups -- 3.2 Stage II: Ranking Groups -- 3.3 Stage III: Partitioning Groups into Subgroups -- 3.4 Stage IV: Scoring Each Structure -- 3.5 Experimental Setup -- 3.6 Dataset -- 3.7 Evaluation Metrics -- 4 Results -- 4.1 Comparative Evaluation on Correlation with TM-Score -- 4.2 Loss-Based Comparison -- 4.3 Statistical Significance Analysis -- 5 Conclusion -- References -- Graph Representation Learning for Protein Conformation Sampling -- 1 Introduction -- 1.1 Related Work -- 2 Methods -- 3 Results -- 3.1 Experimental Setup -- 3.2 Evaluation of Models on Fixed-Length Chains -- 3.3 Evaluation of Models on Variable-Length Chains -- 4 Conclusion -- References -- Excerno: Filtering Mutations Caused by the Clinical Archival Process in Sequencing Data -- 1 Introduction -- 2 Excerno: A Bayes Classifier Using Mutational Signatures -- 3 Simulation and Evaluation Approach -- 4 Simulation Results -- 4.1 Performance Characteristics Across Different COSMIC Baseline Signatures -- 4.2 Performance Characteristics Across Different Percentages of FFPE -- 5 Conclusions -- References -- Relabeling Metabolic Pathway Data with Groups to Improve Prediction Outcomes -- 1 Introduction -- 2 Method -- 2.1 Feed-Forward Phase -- 2.2 Feed-Backward Phase -- 2.3 Closing the Loop -- 3 Experiments -- 3.1 Accumulated History Probability Analysis -- 3.2 Metabolic Pathway Prediction -- 4 Conclusion -- References -- MELEPS: Multiple Expert Linear Epitope Prediction System -- 1 Introduction -- 2 Materials and Methods -- 2.1 Data Collection -- 2.2 The System Flow of MELEPS.
2.3 Integrated Multi-expert Recommendation Methodology -- 2.4 The Weighted Recommendation Score -- 2.5 Performance Measurement of Recommendation -- 3 Results and Discussion -- 3.1 The Weight Parameter Table -- 3.2 Performance of MELEPS -- 3.3 The MELEPS Platform -- 4 Conclusion -- References -- Encoder-Decoder Architectures for Clinically Relevant Coronary Artery Segmentation -- 1 Introduction -- 2 Related Work -- 2.1 Major Vessel Segmentation -- 2.2 Full Coronary Tree Segmentation -- 2.3 Catheter and Full Coronary Tree Segmentation -- 2.4 Other Segmentation Criteria -- 3 Model Evaluation Metrics -- 4 Loss Function -- 5 Architecture -- 5.1 Encoder Comparison -- 5.2 Decoder Comparison -- 5.3 EfficientUNet++ Architecture -- 5.4 Performance vs. Computation Trade-Off -- 6 Experimental Results -- 7 Implementation Details -- 7.1 Training Methodology -- 7.2 Dataset -- 7.3 Data Augmentation -- 8 Discussion and Future Work -- References -- Unified SAT-Solving for Hard Problems of Phylogenetic Network Construction -- 1 Introduction: Evolutionary Trees and Phylogenetic Networks -- 2 Definitions and Problem Statements -- 3 The CNF Formula for the TFP -- 3.1 Identifying, Counting and Limiting Reticulation Nodes in D -- 4 Hybridization Networks: Reticulation Networks When Input Trees Are Specified -- 5 Some Empirical Results -- 5.1 Summary of the Empirical Conclusions -- References -- Feature Selection for Identification of Risk Factors Associated with Infant Mortality -- 1 Introduction -- 2 Method -- 2.1 Study Design and Casuistic -- 2.2 Database Integration -- 2.3 Data Analysis, Cleaning and Preparation -- 2.4 Identification of Main Variables -- 2.5 Tools, Techniques and Software Used -- 3 Results -- 3.1 Data Description -- 3.2 Feature Selection -- 4 Discussion -- 5 Final Considerations -- References.
Addressing Classification on Highly Imbalanced Clinical Datasets -- 1 Introduction -- 2 Related Works -- 3 Materials and Methods -- 3.1 Method Overview -- 3.2 Avocado Dataset and Data Cleaning -- 3.3 Performance Metrics -- 4 Results -- 4.1 Techniques Comparison for Demographics Data Section -- 4.2 Classifiers and Techniques Comparison for Demographics Section -- 4.3 All Data Sections Comparisons -- 5 Conclusion -- References -- mcPBWT: Space-Efficient Multi-column PBWT Scanning Algorithm for Composite Haplotype Matching -- 1 Introduction -- 2 Preliminaries -- 2.1 PBWT Overview -- 2.2 Composite Haplotype Matching -- 3 Multi-column PBWT -- 3.1 Divergence Value Properties -- 3.2 Finding Blocks of Starting Matches -- 3.3 double-PBWT -- 3.4 double-PBWT: Comparing Block of Matches -- 3.5 triple-PBWT -- 4 Discussion -- References -- Computational Advances in Molecular Epidemiology -- Clustering SARS-CoV-2 Variants from Raw High-Throughput Sequencing Reads Data -- 1 Introduction -- 2 Related Work -- 3 Proposed Approach -- 3.1 Producing Consensus Sequences -- 3.2 Embedding Approaches -- 3.3 Clustering Algorithms -- 4 Experimental Evaluation -- 4.1 Dataset Statistics and Visualization -- 4.2 Evaluation Metrics -- 4.3 Clustering Comparison Metrics -- 5 Results and Discussion -- 5.1 Clustering Evaluation -- 5.2 Comparing Different Clusterings -- 5.3 Information Gain -- 5.4 Statistical Analysis -- 6 Conclusion -- References -- Analysis of SARS-CoV-2 Temporal Molecular Networks Using Global and Local Topological Characteristics -- 1 Introduction -- 2 Data and Methods -- 2.1 Data and Preprocessing -- 2.2 Construction of Temporal Networks -- 2.3 Global Network Analysis -- 2.4 Local Topological Analysis -- 2.5 Quantification of Nucleotide Variation -- 2.6 Spectral Network Partitioning -- 2.7 Phylogenetic Analysis -- 3 Results and Analysis.
3.1 Genetic Characterization of the Viral Population -- 3.2 Changes in Global Properties -- 3.3 Association Between RGF Distance and Genetic Variation -- 3.4 Laplacian Network Partitioning Versus Phylogenetic Analysis -- 4 Conclusions -- References -- An SVM Based Approach to Study the Racial Disparity in Triple-Negative Breast Cancer -- 1 Introduction -- 2 Data and Methods -- 2.1 Data and Prepossessing -- 2.2 Construction of SVM Based Model for Feature Selection -- 2.3 Estimation of Feature/Gene -- 2.4 Feature/Gene Validation Analysis -- 3 Results and Discussion -- 3.1 Selection of Final Features -- 3.2 Expression Status of the Features/Gene -- 3.3 Association of High Expression of KLK10 and Survival Outcome of TNBC -- 4 Conclusion -- References -- Author Index.
Record Nr. UNISA-996495571303316
Cham, Switzerland : , : Springer, , [2022]
Materiale a stampa
Lo trovi qui: Univ. di Salerno
Opac: Controlla la disponibilità qui
Computational advances in bio and medical sciences : 11th international conference, ICCABS 2021, virtual event, December 16-18, 2021, revised selected papers / / edited by Mukul S. Bansal
Computational advances in bio and medical sciences : 11th international conference, ICCABS 2021, virtual event, December 16-18, 2021, revised selected papers / / edited by Mukul S. Bansal
Pubbl/distr/stampa Cham, Switzerland : , : Springer, , [2022]
Descrizione fisica 1 online resource (184 pages)
Disciplina 570.285
Collana Lecture Notes in Computer Science
Soggetto topico Bioinformatics
ISBN 3-031-17531-X
Formato Materiale a stampa
Livello bibliografico Monografia
Lingua di pubblicazione eng
Nota di contenuto Intro -- Preface -- Organization -- Contents -- Computational Advances in Bio and Medical Sciences -- Single Model Quality Estimation of Protein Structures via Non-negative Tensor Factorization -- 1 Introduction -- 2 Related Works -- 3 Methodology -- 3.1 Stage I: From Structures to Groups -- 3.2 Stage II: Ranking Groups -- 3.3 Stage III: Partitioning Groups into Subgroups -- 3.4 Stage IV: Scoring Each Structure -- 3.5 Experimental Setup -- 3.6 Dataset -- 3.7 Evaluation Metrics -- 4 Results -- 4.1 Comparative Evaluation on Correlation with TM-Score -- 4.2 Loss-Based Comparison -- 4.3 Statistical Significance Analysis -- 5 Conclusion -- References -- Graph Representation Learning for Protein Conformation Sampling -- 1 Introduction -- 1.1 Related Work -- 2 Methods -- 3 Results -- 3.1 Experimental Setup -- 3.2 Evaluation of Models on Fixed-Length Chains -- 3.3 Evaluation of Models on Variable-Length Chains -- 4 Conclusion -- References -- Excerno: Filtering Mutations Caused by the Clinical Archival Process in Sequencing Data -- 1 Introduction -- 2 Excerno: A Bayes Classifier Using Mutational Signatures -- 3 Simulation and Evaluation Approach -- 4 Simulation Results -- 4.1 Performance Characteristics Across Different COSMIC Baseline Signatures -- 4.2 Performance Characteristics Across Different Percentages of FFPE -- 5 Conclusions -- References -- Relabeling Metabolic Pathway Data with Groups to Improve Prediction Outcomes -- 1 Introduction -- 2 Method -- 2.1 Feed-Forward Phase -- 2.2 Feed-Backward Phase -- 2.3 Closing the Loop -- 3 Experiments -- 3.1 Accumulated History Probability Analysis -- 3.2 Metabolic Pathway Prediction -- 4 Conclusion -- References -- MELEPS: Multiple Expert Linear Epitope Prediction System -- 1 Introduction -- 2 Materials and Methods -- 2.1 Data Collection -- 2.2 The System Flow of MELEPS.
2.3 Integrated Multi-expert Recommendation Methodology -- 2.4 The Weighted Recommendation Score -- 2.5 Performance Measurement of Recommendation -- 3 Results and Discussion -- 3.1 The Weight Parameter Table -- 3.2 Performance of MELEPS -- 3.3 The MELEPS Platform -- 4 Conclusion -- References -- Encoder-Decoder Architectures for Clinically Relevant Coronary Artery Segmentation -- 1 Introduction -- 2 Related Work -- 2.1 Major Vessel Segmentation -- 2.2 Full Coronary Tree Segmentation -- 2.3 Catheter and Full Coronary Tree Segmentation -- 2.4 Other Segmentation Criteria -- 3 Model Evaluation Metrics -- 4 Loss Function -- 5 Architecture -- 5.1 Encoder Comparison -- 5.2 Decoder Comparison -- 5.3 EfficientUNet++ Architecture -- 5.4 Performance vs. Computation Trade-Off -- 6 Experimental Results -- 7 Implementation Details -- 7.1 Training Methodology -- 7.2 Dataset -- 7.3 Data Augmentation -- 8 Discussion and Future Work -- References -- Unified SAT-Solving for Hard Problems of Phylogenetic Network Construction -- 1 Introduction: Evolutionary Trees and Phylogenetic Networks -- 2 Definitions and Problem Statements -- 3 The CNF Formula for the TFP -- 3.1 Identifying, Counting and Limiting Reticulation Nodes in D -- 4 Hybridization Networks: Reticulation Networks When Input Trees Are Specified -- 5 Some Empirical Results -- 5.1 Summary of the Empirical Conclusions -- References -- Feature Selection for Identification of Risk Factors Associated with Infant Mortality -- 1 Introduction -- 2 Method -- 2.1 Study Design and Casuistic -- 2.2 Database Integration -- 2.3 Data Analysis, Cleaning and Preparation -- 2.4 Identification of Main Variables -- 2.5 Tools, Techniques and Software Used -- 3 Results -- 3.1 Data Description -- 3.2 Feature Selection -- 4 Discussion -- 5 Final Considerations -- References.
Addressing Classification on Highly Imbalanced Clinical Datasets -- 1 Introduction -- 2 Related Works -- 3 Materials and Methods -- 3.1 Method Overview -- 3.2 Avocado Dataset and Data Cleaning -- 3.3 Performance Metrics -- 4 Results -- 4.1 Techniques Comparison for Demographics Data Section -- 4.2 Classifiers and Techniques Comparison for Demographics Section -- 4.3 All Data Sections Comparisons -- 5 Conclusion -- References -- mcPBWT: Space-Efficient Multi-column PBWT Scanning Algorithm for Composite Haplotype Matching -- 1 Introduction -- 2 Preliminaries -- 2.1 PBWT Overview -- 2.2 Composite Haplotype Matching -- 3 Multi-column PBWT -- 3.1 Divergence Value Properties -- 3.2 Finding Blocks of Starting Matches -- 3.3 double-PBWT -- 3.4 double-PBWT: Comparing Block of Matches -- 3.5 triple-PBWT -- 4 Discussion -- References -- Computational Advances in Molecular Epidemiology -- Clustering SARS-CoV-2 Variants from Raw High-Throughput Sequencing Reads Data -- 1 Introduction -- 2 Related Work -- 3 Proposed Approach -- 3.1 Producing Consensus Sequences -- 3.2 Embedding Approaches -- 3.3 Clustering Algorithms -- 4 Experimental Evaluation -- 4.1 Dataset Statistics and Visualization -- 4.2 Evaluation Metrics -- 4.3 Clustering Comparison Metrics -- 5 Results and Discussion -- 5.1 Clustering Evaluation -- 5.2 Comparing Different Clusterings -- 5.3 Information Gain -- 5.4 Statistical Analysis -- 6 Conclusion -- References -- Analysis of SARS-CoV-2 Temporal Molecular Networks Using Global and Local Topological Characteristics -- 1 Introduction -- 2 Data and Methods -- 2.1 Data and Preprocessing -- 2.2 Construction of Temporal Networks -- 2.3 Global Network Analysis -- 2.4 Local Topological Analysis -- 2.5 Quantification of Nucleotide Variation -- 2.6 Spectral Network Partitioning -- 2.7 Phylogenetic Analysis -- 3 Results and Analysis.
3.1 Genetic Characterization of the Viral Population -- 3.2 Changes in Global Properties -- 3.3 Association Between RGF Distance and Genetic Variation -- 3.4 Laplacian Network Partitioning Versus Phylogenetic Analysis -- 4 Conclusions -- References -- An SVM Based Approach to Study the Racial Disparity in Triple-Negative Breast Cancer -- 1 Introduction -- 2 Data and Methods -- 2.1 Data and Prepossessing -- 2.2 Construction of SVM Based Model for Feature Selection -- 2.3 Estimation of Feature/Gene -- 2.4 Feature/Gene Validation Analysis -- 3 Results and Discussion -- 3.1 Selection of Final Features -- 3.2 Expression Status of the Features/Gene -- 3.3 Association of High Expression of KLK10 and Survival Outcome of TNBC -- 4 Conclusion -- References -- Author Index.
Record Nr. UNINA-9910619277503321
Cham, Switzerland : , : Springer, , [2022]
Materiale a stampa
Lo trovi qui: Univ. Federico II
Opac: Controlla la disponibilità qui