| Description |
1 online resource : illustrations (chiefly color) |
| Series |
Lecture notes in computer science. Lecture notes in bioinformatics ; 13063 |
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LNCS sublibrary: SL8 - Bioinformatics |
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Lecture notes in computer science ; 13063.
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Lecture notes in computer science. Lecture notes in bioinformatics.
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LNCS sublibrary. SL 8, Bioinformatics.
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| Contents |
Intro -- Preface -- Organization -- Contents -- Applied Bioinformatics and Computational Biology -- Comparative Transcriptome Profiling of Maytenus ilicifolia Root and Leaf -- 1 Introduction -- 2 Methods -- 2.1 Plant Material and Total RNA Isolation -- 2.2 Library Preparation and Sequencing -- 2.3 Quality Control and de novo Assembly -- 2.4 Functional Annotation -- 2.5 Differential Expression Analysis -- 2.6 Gene Ontology Enrichment and KEGG Analysis -- 3 Results and Discussion -- 3.1 De novo Assembly and Functional Annotation of M. ilicifolia -- 3.2 Identification of Differentially Expressed Transcripts in Both Tissues -- References -- Hypusine Plays a Role in the Translation of Short mRNAs and Mediates the Polyamine and Autophagy Pathways in Saccharomyces Cerevisiae -- 1 Introduction -- 2 Materials and Methods -- 2.1 RNA-seq Data Analysis -- 2.2 Strain and Growth Conditions -- 2.3 RNA Isolation and qRT-PCR -- 2.4 Protein Extraction and Western Blot Analysis -- 3 Results and Discussion -- 3.1 Translation of Short ORFs is Impaired in dys1-1 Mutant -- 3.2 Hypusination Modulates Autophagy -- References -- Topological Characterization of Cancer Driver Genes Using Reactome Super Pathways Networks -- 1 Introduction -- 2 Method -- 2.1 Reactome Functional Iteration -- 2.2 Super Pathways as Reactome FI Sub-networks -- 2.3 Super Pathways Sub-networks Enriched with Drivers Information -- 3 Results -- 3.1 Centrality Measures -- 3.2 Network Attack -- 4 Discussion and Conclusion -- References -- Bioinformatics and Computational Biology -- CellHeap: A Workflow for Optimizing COVID-19 Single-Cell RNA-Seq Data Processing in the Santos Dumont Supercomputer -- 1 Introduction -- 2 Description of the CellHeap Workflow -- 3 Results -- 3.1 Input Data and Experiment Setup -- 3.2 Environmental Setup -- 3.3 Results Discussion -- 4 Conclusion -- References |
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Combining Orthology and Xenology Data in a Common Phylogenetic Tree -- 1 Introduction -- 2 Preliminaries -- 3 Tree-Like Pairs of Maps -- 4 Tree-Like Pairs of Maps with Constraints -- 5 Concluding Remark -- References -- ContFree-NGS: Removing Reads from Contaminating Organisms in Next Generation Sequencing Data -- 1 Introduction -- 2 Implementation -- 3 Evaluation -- 4 Conclusion -- References -- Deep Learning-Based COVID-19 Diagnostics of Low-Quality CT Images -- 1 Introduction -- 2 Dataset -- 3 Methodology -- 3.1 Data Preprocessing -- 3.2 Deep Neural Network Architectures -- 4 Experimental Evaluation -- 4.1 Data Preprocessing -- 4.2 Transfer Learning with ResNet50 -- 4.3 Image- and Exam-Level Classification of the Test Set -- 4.4 Interpreting Model Decisions -- 5 Conclusion -- References -- Feature Importance Analysis of Non-coding DNA/RNA Sequences Based on Machine Learning Approaches -- 1 Background -- 2 Pipeline for Machine Learning Classification Task -- 2.1 Prediction of sRNAs -- 2.2 Prediction of CircRNA -- 3 Results and Discussion -- 3.1 Case Study 1: sRNAs in Bacteria -- 3.2 Case Study 2: CircRNA in Humans -- 4 Conclusion -- References -- Heuristics for Cycle Packing of Adjacency Graphs for Genomes with Repeated Genes -- 1 Introduction -- 2 Definitions -- 3 Random Packings -- 4 Genetic Algorithm -- 5 Experimental Results -- 5.1 Applications with the Reversal Distance -- 5.2 Experiments with Real Biological Data -- 6 Conclusion -- References -- PIMBA: A PIpeline for MetaBarcoding Analysis -- 1 Introduction -- 2 Implementation -- 2.1 Preprocessing -- 2.2 Taxonomy Assignment -- 2.3 Plotting -- 3 Results and Discussion -- 3.1 16S rRNA Mock Community -- 3.2 Fungal ITS Mock Community -- 3.3 Metazoan COI Mock Community -- 4 Conclusion -- References -- Short Papers -- CEvADA: Co-Evolution Analysis Data Archive -- 1 Introduction -- 2 Technical Notes |
| Summary |
This book constitutes the refereed proceedings of the Brazilian Symposium on Bioinformatics, BSB 2021, held in November 2021. Due to COVID-19 pandemic the conference was held virtually The 10 revised full papers and 5 short papers were carefully reviewed and selected from 28 submissions. The papers address a broad range of current topics in computational biology and bioinformatics |
| Notes |
Conference proceedings |
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Includes author index |
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Online resource; title from PDF title page (SpringerLink, viewed December 2, 2021) |
| Subject |
Bioinformatics -- Congresses
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Computational biology -- Congresses
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Bioinformatics
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Computational biology
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| Genre/Form |
Electronic books
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proceedings (reports)
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Conference papers and proceedings
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Conference papers and proceedings.
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Actes de congrès.
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| Form |
Electronic book
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| Author |
Stadler, Peter F., 1965- editor.
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Walter, Maria Emilia M. T. (Marie Emilia Machado Telles), editor.
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Hernandez-Rosales, Maribel, editor
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Brigido, Marcelo M., editor
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| ISBN |
9783030918149 |
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3030918149 |
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