Advances in Computational Biology, 1st Edition

  • Published By:
  • ISBN-10: 3319015680
  • ISBN-13: 9783319015682
  • DDC: 570.285
  • Grade Level Range: College Freshman - College Senior
  • 397 Pages | eBook
  • Original Copyright 2014 | Published/Released June 2014
  • This publication's content originally published in print form: 2014

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This volume compiles accepted contributions for the 2nd Edition of the Colombian Computational Biology and Bioinformatics Congress CCBCOL, after a rigorous review process in which 54 papers were accepted for publication from 119 submitted contributions. Bioinformatics and Computational Biology are areas of knowledge that have emerged due to advances that have taken place in the Biological Sciences and its integration with Information Sciences. The expansion of projects involving the study of genomes has led the way in the production of vast amounts of sequence data which needs to be organized, analyzed and stored to understand phenomena associated with living organisms related to their evolution, behavior in different ecosystems, and the development of applications that can be derived from this analysis. 

Table of Contents

Front Cover.
Editorial Board.
Title Page.
Copyright Page.
1: Predictive Modeling of Signaling Transduction Mediated by Tyrosine-Kinase Receptors.
2: Bioinformatic Analysis of Two Proteins with Suspected Linkage to Pulmonary Atresia with Intact Ventricular Septum.
3: Construction and Comparison of Gene Co-expression Networks Based on Immunity Microarray Data from Arabidopsis, Rice, Soybean, Tomato and Cassava.
4: in silico Binding Free Energy Characterization of Cowpea Chlorotic Mottle Virus Coat Protein Homodimer Variants.
5: Analysis of Binding Residues between PDGF-BB and Epidermal Growth Factor Receptor: A Computational Docking Study.
6: Software as a Service for Supporting Biodiversity Conservation Decision Making.
7: Structural and Functional Prediction of the Hypothetical Protein Pa2481 in Pseudomonas Aeruginosa Pao1.
8: Exploration of the Effect of Input Data on the Modeling of Cellular Objective in Flux Balance Analysis (FBA).
9: Prediction of Potential Kinase Inhibitors in Leishmania spp. through a Machine Learning and Molecular Docking Approach.
10: Functional Protein Prediction Using HMM Based Feature Representation and Relevance Analysis.
11: High Throughput Location Proteomics in Confocal Images from the Human Protein Atlas Using a Bag-of-Features Representation.
12: Measuring Complexity in an Aquatic Ecosystem.
13: Possible Antibiofilm Effect of Peptides Derived from IcaR Repressor of Staphylococcus epidermidis Responsible for Hospital-Acquired Sepsis.
14: “Head to Tail” Tool Analysis through ClustalW Alignment Algorithms and Construction of Distance Method Neighbor-Joining Trees Based on Genus Fusarium Genomic Distances.
15: False Positive Reduction in Automatic Segmentation System.
16: Photosynthesis Thermodynamic Efficiency Facing Climate Change.
17: Thermogenesis Driven by ATP Hydrolysis in a Model with Cubic Autocatalysis.
18: Towards a Linked Open Data Model for Coffee Functional Relationships.
19: Stability Analysis of Antimicrobial Peptides in Solvation Conditions by Molecular Dynamics.
20: Application of Genome Studies of Coffee Rust.
21: In-silico Analysis of the Active Cavity of N-Acetylgalactosamine-6-Sulfate Sulfatase in Eight Species.
22: Gene Predictors Ensemble for Complex Metagenomes.
23: Classification of Antimicrobial Peptides by Using the p-spectrum Kernel and Support Vector Machines.
24: Genomic Relationships among Different Timor Hybrid (Coffea L.) Accessions as Revealed by SNP Identification and RNA-Seq Analysis.
25: A Combined Sensitivity and Metabolic Flux Analysis Unravel the Importance of Amino Acid Feeding Strategies in Clavulanic Acid Biosynthesis.
26: Flux Balance Analysis and Strain Optimization for Ethanol Production in Saccharomyces Cerevisiae.
27: Domain Ontology-Based Query Expansion: Relationships Types-Centered Analysis Using Gene Ontology.
28: FS-Tree: Sequential Association Rules and First Applications to Protein Secondary Structure Analysis.
29: Presentation and Evaluation of ABMS (Automatic Blast for Massive Sequencing)*.
30: In silico Analysis of Iduronate 2 Sulfatase Mutations in Colombian Patients with Hunter Syndrome (MPSII).
31: Phylogenetic Analysis of Four Dung Beetle Species of Neotropical Genus Oxyternon (Coleoptera: Scarabaeidae: Scarabaeinae) Based on 28S and COI Partial Regions.
32: Limits to Sequencing and de novo Assembly: Classic Benchmark Sequences for Optimizing Fungal NGS Designs.
33: Optimal Control for a Discrete Time Influenza Model.
34: Transcriptomics of the Immune System of Hydrozoan Hydractinia symbiolongicarpus Using High Throughput Sequencing Methods.
35: Fuzzy Model Proposal for the Coffee Berry Borer Expansion at Colombian Coffee Fields.
36: Analysis of Structure and Hemolytic Activity Relationships of Antimicrobial Peptides (AMPs).
37: Candidates for New Molecules Controlling Allorecognition in Hydractinia Symbiolongicarpus.
38: Escherichia coli´s OmpA as Biosurfactant for Cosmetic Industry: Stability Analysis and Experimental Validation Based on Molecular Simulations.
39: Molecular Cloning, Modelling and Docking with Curcumin of the Dengue Virus 2 NS5 Polymerase Domain.
40: In Silico Analysis for Biomass Synthesis under Different CO2 Levels for Chlamydomonas reinhardtii Utilizing a Flux Balance Analysis Approach.
41: Analysis of Metabolic Functionality and Thermodynamic Feasibility of a Metagenomic Sample from “El Coquito” Hot Spring.
42: Identification of Small Non-coding RNAs in Bacterial Genome Annotation Using Databases and Computational Approaches.
43: Structural Modeling of Toxoplasma Gondii TGME49_289620 Proteinase.
44: Diversification of the Major Histocompatibility Complex (MHC) -G and -B Loci in New World Primates.
45: A Methodology for Optimizing the E-value Threshold in Alignment-Based Gene Ontology Prediction Using the ROC Curve.
46: Hydrolytic Activity of OXA and CTX-M Beta-Lactamases Against Beta-Lactamic Antibiotics.
47: Analysis in Silico of 5’-Terminal Secondary Structures of Hepatitis C Virus Sequences Genotype 1 from Colombia.
48: In Silico Hybridization System for Mapping Functional Genes of Soil Microorganism Using Next Generation Sequencing.
49: Identification of Differently Expresed Proteins Related to Drillings Fluids Exposure in Hydractinia Symbiolongicarpus by Mass Spectrometry.
50: In Silico Modificiton of Cathelicidins Generates Analogous Peptides with Improved.
51: Harmonizing Protection and Publication of Research Findings in Biosciences and Bioinformatics.
52: Mathematical Modeling of Lignocellulolytic Enzyme Production from Three Species of White Rot Fungi by Solid-State Fermentation.
53: Bioinformatics Tools and Data Mining for Therapeutic Drug Analysis.
54: iTRAQ, The High Throughput Data Analysis of Proteins to Understand Immunologic Expression in Insect.
Author Index.