Bioinformatics Research and Applications : 15th International Symposium, ISBRA 2019, Barcelona, Spain, June 3{u2013}6, 2019, Proceedings

This book constitutes the proceedings of the 15th International Symposium on Bioinformatics Research and Applications, ISBRA 2019, held in Barcelona, Spain, in June 2019. The 22 full papers presented in this book were carefully reviewed and selected from 95 submissions. They were organized in topical sections named: genome analysis; systems biology; computational proteomics; machine and deep learning; and data analysis and methodology. Front Matter ....Pages i-xiii Front Matter ....Pages 1-1 Computing a Consensus Phylogeny via Leaf Removal (Zhi-Zhong Chen, Shohei Ueta, Jingyu Li, Lusheng Wang)....Pages 3-15 The Review of Bioinformatics Tool for 3D Plant Genomics Research (Xiangyu Yang, Zhenghao Li, Jingtian Zhao, Tao Ma, Pengchao Li, Le Zhang)....Pages 16-27 Sorting by Reversals, Transpositions, and Indels on Both Gene Order and Intergenic Sizes (Klairton Lima Brito, Géraldine Jean, Guillaume Fertin, Andre Rodrigues Oliveira, Ulisses Dias, Zanoni Dias)....Pages 28-39 Unifying Gene Duplication, Loss, and Coalescence on Phylogenetic Networks (Peng Du, Huw A. Ogilvie, Luay Nakhleh)....Pages 40-51 The Cluster Affinity Distance for Phylogenies (Jucheol Moon, Oliver Eulenstein)....Pages 52-64 Modeling SNP-Trait Associations and Realizing Privacy-Utility Tradeoff in Genomic Data Publishing (Zaobo He, Jianqiang Li)....Pages 65-72 Simultaneous Multi-Domain-Multi-Gene Reconciliation Under the Domain-Gene-Species Reconciliation Model (Lei Li, Mukul S. Bansal)....Pages 73-86 Front Matter ....Pages 87-87 IDNDDI: An Integrated Drug Similarity Network Method for Predicting Drug-Drug Interactions (Cheng Yan, Guihua Duan, Yayan Zhang, Fang-Xiang Wu, Yi Pan, Jianxin Wang)....Pages 89-99 Model Revision of Boolean Regulatory Networks at Stable State (Filipe Gouveia, Inês Lynce, Pedro T. Monteiro)....Pages 100-112 Gene- and Pathway-Based Deep Neural Network for Multi-omics Data Integration to Predict Cancer Survival Outcomes (Jie Hao, Mohammad Masum, Jung Hun Oh, Mingon Kang)....Pages 113-124 Front Matter ....Pages 125-125 Identifying Human Essential Genes by Network Embedding Protein-Protein Interaction Network (Wei Dai, Qi Chang, Wei Peng, Jiancheng Zhong, Yongjiang Li)....Pages 127-137 Automated Hub-Protein Detection via a New Fused Similarity Measure-Based Multi-objective Clustering Framework (Sudipta Acharya, Laizhong Cui, Yi Pan)....Pages 138-145 Improving Identification of Essential Proteins by a Novel Ensemble Method (Wei Dai, Xia Li, Wei Peng, Jurong Song, Jiancheng Zhong, Jianxin Wang)....Pages 146-155 Front Matter ....Pages 157-157 Deep Learning and Random Forest-Based Augmentation of sRNA Expression Profiles (Jelena Fiosina, Maksims Fiosins, Stefan Bonn)....Pages 159-170 Detecting Illicit Drug Ads in Google+ Using Machine Learning (Fengpan Zhao, Pavel Skums, Alex Zelikovsky, Eric L. Sevigny, Monica Haavisto Swahn, Sheryl M. Strasser et al.)....Pages 171-179 Front Matter ....Pages 181-181 A Robustness Analysis of Dynamic Boolean Models of Cellular Circuits (Ariel Bruner, Roded Sharan)....Pages 183-195 Graph Transformations, Semigroups, and Isotopic Labeling (Jakob L. Andersen, Daniel Merkle, Peter S. Rasmussen)....Pages 196-207 Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing (Enrico Petrucci, Laurent Noé, Cinzia Pizzi, Matteo Comin)....Pages 208-219 DM-SIRT: A Distributed Method for Multi-tilt Reconstruction in Electron Tomography (Zihao Wang, Jingrong Zhang, Xintong Liu, Zhiyong Liu, Xiaohua Wan, Fa Zhang)....Pages 220-231 PeakPass: Automating ChIP-Seq Blacklist Creation (Charles E. Wimberley, Steffen Heber)....Pages 232-243 Maximum Stacking Base Pairs: Hardness and Approximation by Nonlinear LP-Rounding (Lixin Liu, Haitao Jiang, Peiqiang Liu, Binhai Zhu, Daming Zhu)....Pages 244-256 Greedy Partition Distance Under Stochastic Models - Analytic Results (Sagi Snir)....Pages 257-269 Back Matter ....Pages 271-272 This book constitutes the refereed proceedings of the 9th International Symposium on Bioinformatics Research and Applications, ISBRA 2013, held in Charlotte, NC, USA, in May 2013. The 25 revised full papers presented together with 4 invited talks were carefully reviewed and selected from 46 submissions. The papers cover a wide range of biomedical databases and data integration, high-performance bio-computing, biomolecular imaging, high-throughput sequencing data analysis, bio-ontologies, molecular evolution, comparative genomics and phylogenomics, molecular modeling and simulation, pattern discovery and classification, computational proteomics, population genetics, data mining and visualization, software tools and applications. This Book Constitutes The Refereed Proceedings Of The 16th Annual Symposium On Theoretical Aspects Of Computer Science, Stacs 99, Held In Trier, Germany In March 1999. The 51 Revised Full Papers Presented Were Selected From A Total Of 146 Submissions. Also Included Are Three Invited Papers. The Volume Is Divided In Topical Sections On Complexity, Parallel Algorithms, Computational Geometry, Algorithms And Data Structures, Automata And Formal Languages, Verification, Algorithmic Learning, And Logic In Computer Science.