Ebook: Advances in Computational Biology: Proceedings of the 2nd Colombian Congress on Computational Biology and Bioinformatics (CCBCOL)

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.

---

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.

---

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.

Content:
Front Matter....Pages 1-15
Predictive Modeling of Signaling Transduction Mediated by Tyrosine-Kinase Receptors....Pages 1-6
Bioinformatic Analysis of Two Proteins with Suspected Linkage to Pulmonary Atresia with Intact Ventricular Septum....Pages 7-12
Construction and Comparison of Gene Co-expression Networks Based on Immunity Microarray Data from Arabidopsis, Rice, Soybean, Tomato and Cassava....Pages 13-19
Analysis of Binding Residues between PDGF-BB and Epidermal Growth Factor Receptor: A Computational Docking Study....Pages 21-28
Software as a Service for Supporting Biodiversity Conservation Decision Making....Pages 29-39
Exploration of the Effect of Input Data on the Modeling of Cellular Objective in Flux Balance Analysis (FBA)....Pages 41-46
Prediction of Potential Kinase Inhibitors in Leishmania spp. through a Machine Learning and Molecular Docking Approach....Pages 47-55
Functional Protein Prediction Using HMM Based Feature Representation and Relevance Analysis....Pages 57-62
High Throughput Location Proteomics in Confocal Images from the Human Protein Atlas Using a Bag-of-Features Representation....Pages 63-70
Measuring Complexity in an Aquatic Ecosystem....Pages 71-76
Possible Antibiofilm Effect of Peptides Derived from IcaR Repressor of Staphylococcus epidermidis Responsible for Hospital-Acquired Sepsis....Pages 77-82
“Head to Tail” Tool Analysis through ClustalW Alignment Algorithms and Construction of Distance Method Neighbor-Joining Trees Based on Genus Fusarium Genomic Distances....Pages 83-89
False Positive Reduction in Automatic Segmentation System....Pages 91-95
Photosynthesis Thermodynamic Efficiency Facing Climate Change....Pages 97-102
Thermogenesis Driven by ATP Hydrolysis in a Model with Cubic Autocatalysis....Pages 103-108
Towards a Linked Open Data Model for Coffee Functional Relationships....Pages 109-114
Stability Analysis of Antimicrobial Peptides in Solvation Conditions by Molecular Dynamics....Pages 115-120
Application of Genome Studies of Coffee Rust....Pages 121-126
Gene Predictors Ensemble for Complex Metagenomes....Pages 127-131
Classification of Antimicrobial Peptides by Using the p-spectrum Kernel and Support Vector Machines....Pages 133-139
Genomic Relationships among Different Timor Hybrid (Coffea L.) Accessions as Revealed by SNP Identification and RNA-Seq Analysis....Pages 141-146
A Combined Sensitivity and Metabolic Flux Analysis Unravel the Importance of Amino Acid Feeding Strategies in Clavulanic Acid Biosynthesis....Pages 147-154
Domain Ontology-Based Query Expansion: Relationships Types-Centered Analysis Using Gene Ontology....Pages 155-160
FS-Tree: Sequential Association Rules and First Applications to Protein Secondary Structure Analysis....Pages 161-168
Presentation and Evaluation of ABMS (Automatic Blast for Massive Sequencing)....Pages 169-175
Phylogenetic Analysis of Four Dung Beetle Species of Neotropical Genus Oxyternon (Coleoptera: Scarabaeidae: Scarabaeinae) Based on 28S and COI Partial Regions....Pages 177-182
Limits to Sequencing and de novo Assembly: Classic Benchmark Sequences for Optimizing Fungal NGS Designs....Pages 183-188
Optimal Control for a Discrete Time Influenza Model....Pages 189-198
Transcriptomics of the Immune System of Hydrozoan Hydractinia symbiolongicarpus Using High Throughput Sequencing Methods....Pages 199-204
Fuzzy Model Proposal for the Coffee Berry Borer Expansion at Colombian Coffee Fields....Pages 205-212
Analysis of Structure and Hemolytic Activity Relationships of Antimicrobial Peptides (AMPs)....Pages 213-219
Molecular Cloning, Modelling and Docking with Curcumin of the Dengue Virus 2 NS5 Polymerase Domain....Pages 221-230
Analysis of Metabolic Functionality and Thermodynamic Feasibility of a Metagenomic Sample from “El Coquito” Hot Spring....Pages 231-237
Identification of Small Non-coding RNAs in Bacterial Genome Annotation Using Databases and Computational Approaches....Pages 239-245
Structural Modeling of Toxoplasma gondii TGME49_289620 Proteinase....Pages 247-252
Diversification of the Major Histocompatibility Complex (MHC) -G and -B Loci in New World Primates....Pages 253-258
A Methodology for Optimizing the E-value Threshold in Alignment-Based Gene Ontology Prediction Using the ROC Curve....Pages 259-263
Hydrolytic Activity of OXA and CTX-M beta-Lactamases against beta-Lactamic Antibiotics....Pages 265-271
Analysis in Silico of 5’-Terminal Secondary Structures of Hepatitis C Virus Sequences Genotype 1 from Colombia....Pages 273-278
Identification of Differently Expresed Proteins Related to Drillings Fluids Exposure in Hydractinia Symbiolongicarpus by Mass Spectrometry....Pages 279-285
Harmonizing Protection and Publication of Research Findings in Biosciences and Bioinformatics....Pages 287-293
Mathematical Modeling of Lignocellulolytic Enzyme Production from Three Species of White Rot Fungi by Solid-State Fermentation....Pages 295-300
Bioinformatics Tools and Data Mining for Therapeutic Drug Analysis....Pages 301-305
iTRAQ, The High Throughput Data Analysis of Proteins to Understand Immunologic Expression in Insect....Pages 307-313
Back Matter....Pages 315-320
....Pages 321-326