Tutorial TUT1: A Survey of Representations for Applying Evolutionary Computation to Bioinformatics
Wednesday, August 12, 8:30AM-10:00AM, Room: Niagara, Instructor: Daniel Ashlock
CB1: Coffee Break
Wednesday, August 12, 10:00AM-10:30AM, Room: Niagara
Tutorial TUT2: Bioinformatics on the Epigenome
Wednesday, August 12, 10:30AM-12:00PM, Room: Niagara, Instructor: Wendy Ashlock
Tutorial TUT3: Applications of Bayesian Model Averaging in Personalized Medicine and Systems Biology
Wednesday, August 12, 1:30PM-3:00PM, Room: Niagara, Instructor: Ka Yee Yeung
CB2: Coffee Break
Wednesday, August 12, 3:00PM-3:30PM, Room: Niagara
Tutorial TUT4: The Identification of cis-Regulatory Elements: A Tutorial From the Machine-Learning Perspective
Wednesday, August 12, 3:30PM-5:00PM, Room: Niagara, Instructor: Yifeng Li
Plenary Talk PT1: Uncommon Use of Common Data (in BioMedicine)
Thursday, August 13, 9:00AM-10:00AM, Room: Niagara, Speaker: Hagit Shatkay
CB3: Coffee Break
Thursday, August 13, 10:00AM-10:20AM, Room: Niagara
Session A: Gene Expression Analysis
Thursday, August 13, 10:20AM-12:00PM, Room: Niagara, Chair: Kay C. Wiese
| 10:20AM | Detecting Protein Complexes using Gene Expression Biclusters [#15003] |
| Eileen Marie Hanna and Nazar Zaki | |
| UAEU, United Arab Emirates | |
| 10:40AM | Heuristic Principal Component Analysis Based unsupervised Feature Extraction and its Application to Gene Expression Analysis of Amyotrophic Lateral Sclerosis [#15009] |
| Y-h. Taguchi, Mitsuo Iwadate and Hideaki Umeyama | |
| Chuo University, Japan | |
| 11:00AM | Digitization of Trait Representation in Microarray Data Analysis of Wheat Infected by Fusarium graminearum [#15050] |
| Youlian Pan, Therese Ouellet, Sieu Phan, Alain Tchagang, Francois Fauteux and Dan Tulpan | |
| Information and Communications Technologies, NRC, Canada; Eastern Cereal and Oilseed Research Centre, AAFC, Canada | |
| 11:20AM | Towards Large Scale Genetic Network Modeling [#15092] |
| Rubaiya Rahtin Khan and Madhu Chetty | |
| Federation University Australia, Australia | |
| 11:40AM | Lexicode Crossover for Embeddable Biomarkers [#15034] |
| Daniel Ashlock and Sheridan Houghten | |
| University of Guelph, Canada; Brock University, Canada |
Special Session Z3.1: Pattern Recognition, Data Mining and Image Processing for Bioinformatics, Computational Biology, and Medicine
Thursday, August 13, 1:30PM-3:30PM, Room: Niagara, Chair: Fazel Zarandi
| 1:30PM | Systematic Bone Infection Detection in Axial Diabetic Foot MRI [#15011] |
| Maede Maftouni, Mohammad hossein Fazel Zarandi, Burhan Turksen and Niloofar Ayubi Yazdi | |
| Department of Industrial Engineering, Amirkabir University of technology, Iran; Knowledge Intelligent System Laboratory University of Toronto, Canada; Advanced Diagnostic and Interventional Radiology Research Center, Tehran University of Medical Science, Iran | |
| 1:50PM | Lung Nodule Diagnosis from CT Images Based on Ensemble Learning [#15018] |
| Farzad Vasheghani Farahani, Abbas Ahmadi and Mohammad hossein Fazel Zarandi | |
| Department of Industrial Engineering and Management Systems, Amirkabir University of Technology, Iran | |
| 2:10PM | Fuzzy Rule-based Expert System for Diagnosis of Thyroid Disease [#15093] |
| Sajjad Amrollahi Biyouki, Mohammad Hossein Fazel Zarandi and Ismail Burhan Turksen | |
| Department of Industrial Engineering, Amirkabir University of Technology, Iran; Department of Mechanical and Industrial Engineering, University of Toronto, Canada | |
| 2:30PM | Classification via Correlation-based Feature Grouping [#15036] |
| Mina Maleki and Luis Rueda | |
| University of Windsor, Canada | |
| 2:50PM | A Novel Gene Selection Algorithm for cancer identification based on Random Forest and Particle Swarm Optimization [#15102] |
| Elnaz Pashaei, Mustafa Ozen and Nizamettin Aydin | |
| Yildiz Technical University, Turkey; Biruni University, Turkey | |
| 3:10PM | New Approaches to Identify Cancer Heterogeneity in DNA Methylation Studies Using the Lepage Test and Multinomial Logistic Regression [#15076] |
| Seongkeon Lee, Youngjun Piao, Huidong Shi and Jeong-Hyeon Choi | |
| Sungshin Women's University, Korea, Republic of; Chungbuk National University, Korea, Republic of; Georgia Regents University, United States |
CB4: Coffee Break
Thursday, August 13, 3:30PM-3:50PM, Room: Niagara
Special Session Z4: Computational Intelligence in Ecoinformatics
Thursday, August 13, 3:50PM-5:30PM, Room: Niagara, Chair: Daniel Ashlock
| 3:50PM | Stress and Productivity Performance in the Workforce Modelled with Binary Decision Automata [#15035] |
| Matthew Page and Daniel Ashlock | |
| CIBC Bank, Canada; University of Guelph, Canada | |
| 4:10PM | FragGeneScan-Plus for scalable high-throughput short-read open reading frame prediction [#15109] |
| Dongjae Kim, Aria Hahn, Shang-Ju Wu, Niels Hanson, Kishori Konwar and Steven Hallam | |
| University of British Columbia, Canada | |
| 4:30PM | A Comparison of Incremental Community Assembly with Evolutionary Community Selection [#15065] |
| Daniel Ashlock and Meghan Timmins | |
| University of Guelph, Canada | |
| 4:50PM | Assembly independent functional annotation of short-read data using SOFA: Short-ORF Functional Annotation [#15083] |
| Aria Hahn, Niels Hanson, Dongjae Kim, Kishori Konwar and Steven Hallam | |
| University of British Columbia, Canada | |
| 5:10PM | Varying Decision Inputs in Prisoner's Dilemma [#15041] |
| Lee-Ann Barlow and Daniel Ashlock | |
| University of Guelph, Canada |
Plenary Poster Session P1: Reception and Poster Session
Thursday, August 13, 6:00PM-8:00PM, Room: Rainbow Salon, Chair: Sheridan Houghten
| P101 | Protein Secondary Structure Prediction Using an Evolutionary Computation Method and Clustering [#15086] |
| Masood Zamani and Kremer Stefan | |
| University of Guelph, Canada | |
| P102 | Taenia Biomolecular Phylogeny and the Impact of Mitochondrial Genes on this Latter [#15010] |
| Huda Al-Nayyef, Christophe Guyeux and Jacques M. Bahi | |
| University of Franche-Comte, France | |
| P103 | Protein Structure Similarity using Recurrence Relation Technique [#15088] |
| S. Jahnavi Somavarapu, Dr. K. Suvarna Vani Koneru and Praveen Kumar Kollu | |
| V.R.Siddhartha Engineering College, India | |
| P104 | LargeDEL: A Tool for Identifying Large Deletions in the Whole Genome Sequencing Data [#15017] |
| Pinar Kavak and Huseyin Demirci | |
| Advanced Genomics and Bioinformatics Research Group, BILGEM, TUBITAK, Turkey | |
| P105 | Novel Domain Identification Approach for Protein-Protein Interaction Prediction [#15105] |
| Maad Shatnawi and Nazar Zaki | |
| United Arab Emirates University, United Arab Emirates | |
| P106 | TSC_ATP: A Two-Stage Classifier For Predicting Protein-ATP Binding Sites From Protein Sequence [#15090] |
| Bryan Andrews and Jing Hu | |
| Franklin and Marshall College, United States | |
| P107 | Analysis of Gene Mutation that cause Lung Cancer by using Data miningand Study of Common Remedy [#15054] |
| Chaewon Ham, Jiwoo Kim, Seojung Ahn, Yebin Kim, Sewon Kim and Taeseon Yoon | |
| Department of International, Hankuk Academy of Foreign Studies, Korea (South); Department of Natural Science, Hankuk Academy of Foreign Studies, Korea (South) | |
| P108 | Prediction of High-Throughput Protein-Protein Interactions based on Protein Sequence Information [#15062] |
| Yixun Li, Behzad Rezaei, Alioune Ngom and Luis Rueda | |
| University of Windsor, Canada | |
| P109 | The impact of particles initialization in PSO: parameter estimation as a case in point [#15031] |
| Paolo Cazzaniga, Marco S. Nobile and Daniela Besozzi | |
| University of Bergamo, Italy; University of Milano-Bicocca, Italy; University of Milano, Italy | |
| P110 | Interactive Evolution Instead of Default Parameters [#15042] |
| Daniel Ashlock, Cameron McGuinness and Joseph O'Neill | |
| University of Guelph, Canada | |
| P111 | On predicting transport proteins and their substrates for the reconstruction of metabolic networks [#15043] |
| Faizah Aplop and Gregory Butler | |
| Universiti Malaysia Terengganu, Malaysia; Concordia University, Canada | |
| P112 | A Neural Network Approach to Retinal Layer Boundary Identification From Optical Coherence Tomography Images [#15045] |
| Kevin McDonough, Ilya Kolmanovsky and Inna Glybina | |
| University of Michigan, United States; Wayne State University, School of Medicine, United States | |
| P113 | Dimensionality Reduction Approach for Genotypic Data [#15051] |
| Luluah Al-Husain and Alaaeldin Hafez | |
| King Saud University, Saudi Arabia | |
| P114 | Reconstruction of a GRN model of salt stress response in Arabidopsis using genetic algorithms [#15053] |
| Gonzalo Ruz, Tania Timmermann and Eric Goles | |
| Universidad Adolfo Ibanez, Chile | |
| P115 | A Multi-Scale Evolutionary Algorithm for Engineering Bacterial Populations [#15104] |
| Jennifer Hallinan and Anil Wipat | |
| Macquarie University, Australia; Newcastle University, United Kingdom | |
| P116 | An Information Extraction System for Protein Function Prediction [#15046] |
| Kamal Taha and Paul Yoo | |
| Khalifa University, United Arab Emirates; Bournemouth University, United Kingdom | |
| P117 | An Intelligent Multi-Agent System Architecture for enhancing Self-Management of Type 2 Diabetic Patients [#15007] |
| Zahra Darabi, Saba Shokoohisolgi, Mohammadhosein Fazel Zarandi and Burhan Turksen | |
| Department of Industrial Engineering Sharif University of Technology, Iran; Department of Industrial Engineering Amir-Kabir University of Technology, Iran; Department of Mechanical and Industrial Engineering University of Toronto, Canada | |
| P118 | Analysis of Cell Migration Patterns in Time Lapse Microscopy Using Texture Features [#15060] |
| Jiang Ching-Fen, Chiu Tzeng-Shiang and Tsai Ming-Hong | |
| Department of Biomedical Engineering, I-Shou University, Taiwan | |
| P119 | A Complexity Measurement for de novo Protein Folding [#15021] |
| Michael Brown, Olivia Hua and James Coker | |
| University of Maryland, University College, United States; Saint Mary's College of California, United States | |
| P120 | Epilepsy Detection using Ensemble methods: A Novel Hybrid Classifiers based Model for mining in Neuro-imaging [#15005] |
| A.B.N. Alvi and Usman Qamar | |
| NUST, Pakistan | |
| P121 | A Novel Approach for Finding Informative Genes in Ten Subtypes of Breast Cancer [#15047] |
| Forough Firoozbakht, Iman Rezaeian, Lisa Porter, Alioune Ngom and Luis Rueda | |
| University of Windsor, Canada | |
| P122 | Hybrid Feature Selection Methods for Online Biomedical Publication Classification [#15079] |
| Long Ma, Yanqing Zhang, Raj Sunderraman, Peter T. Fox, Angela R. Laird, Jessica A. Turner and Matthew D. Turner | |
| Department of Computer Science, Georgia State University, Atlanta, United States; University of Texas Health Science Center San Antonio (UTHSCSA), United States; Department of Physics, Florida International University, Miami, United States; Department of Psychology and the Neuroscience Institute, Georgia State University, Atlanta, United States | |
| P123 | Predicting Time Sequences in Gene expression Using Dynamic Neuro-fuzzy Networks [#15095] |
| Ali Ahmadi and Sadaf Iranpour Tari | |
| K.N.Toosi University of Technolog, Iran |
Session C: Structure Prediction and Folding
Friday, August 14, 8:00AM-10:00AM, Room: Niagara, Chair: Kay C. Wiese
| 8:00AM | Genetic Operators Based on Backbone Constraint Angles for Protein Structure Prediction [#15027] |
| Karina Santos, Fabio Custodio, Helio Barbosa and Laurent Dardenne | |
| National Laboratory for Scientific Computing (LNCC), Brazil | |
| 8:20AM | Classification of RNA sequences with pseudoknots using features based on partial sequences [#15012] |
| Kwok-Kit Tong, Kwan-Yau Cheung, Kin-Hong Lee and Kwong-Sak Leung | |
| Department of Computer Science and Engineering, The Chinese University of Hong Kong, Shatin N.T. Hong Kong, Hong Kong | |
| 8:40AM | Computational approach for GRP78-NFKB binding interactions in the context of neuroprotective pathway in brain injuries [#15016] |
| Janneth Gonzalez | |
| Assistant Professor, Colombia | |
| 9:00AM | A Multiobjective Approach for Protein Structure Prediction Using a Steady-State Genetic Algorithm with Phenotypic Crowding [#15026] |
| Gregorio Rocha, Fabio Custodio, Helio Barbosa and Laurent Dardenne | |
| The National Laboratory for Scientific Computing (LNCC), Brazil | |
| 9:20AM | Side-Chain Flexibility in Protein Docking [#15072] |
| Hui Liu, Feng Lin, Jianli Yang and Xiuling Liu | |
| Nanyang Technological University, Singapore; Hebei University, China | |
| 9:40AM | O-glycosylation Sites Prediction using the Meta-Prediction Approach [#15084] |
| Wei-Fu Lu and Yi-Hou Chen | |
| Department of CSIE, Asia University, Taiwan; Department of Biomedical Science, Asia University, Taiwan |
CB5: Coffee Break
Friday, August 14, 10:00AM-10:20AM, Room: Niagara
Session S: Big Data Analysis and Tools for Biological and Medical Data
Friday, August 14, 10:20AM-12:00PM, Room: Niagara, Chair: Ananya Das Christman
| 10:20AM | A Biomarker Ensemble Ranking Framework for Prioritizing Depression Candidate Genes [#15029] |
| Abu Chowdhury, Md Alam and Yanqing Zhang | |
| Georgia State University, United States | |
| 10:40AM | Evolutionary Computation for Disease Gene Association [#15091] |
| Ashkan Entezari Heravi, Koosha Tahmasebipour and Sheridan Houghten | |
| Brock University, Canada | |
| 11:00AM | A Study of Comparing the Ambiguity of Existing Virus Taxonomy Structures Using Protein's Region Names in the Vector Space Model [#15004] |
| Jing-Doo Wang | |
| Asia University, Taiwan | |
| 11:20AM | REFBSS: Reference Based Similarity Search in Biological Network Databases [#15014] |
| Arda Soylev and Osman Abul | |
| Necmettin Erbakan University, Turkey; TOBB University, Turkey | |
| 11:40AM | Significance Testing for Variable Selection in High-Dimension [#15069] |
| Jean-Michel Becu, Christophe Ambroise, Cyril Dalmasso and Yves Grandvalet | |
| Heudiasyc, UTC, France; LaMME, UEVE, France |
Plenary Talk PT2: Computational Approaches to Identify Functional Genetic Variants in Cancer
Friday, August 14, 1:30PM-2:30PM, Room: Niagara, Speaker: Gary Bader
CB6: Coffee Break
Friday, August 14, 2:30PM-2:50PM, Room: Niagara
Special Session Z3.2: Pattern Recognition, Data Mining and Image Processing for Bioinformatics, Computational Biology, and Medicine
Friday, August 14, 2:50PM-4:30PM, Room: Niagara, Chair: Fazel Zarandi
| 2:50PM | A Benchmark for Automated Peak Picking of Protein NMR Spectra [#15049] |
| Piotr Klukowski, Adam Gonczarek and Michal Walczak | |
| Wroclaw University of Technology, Poland; ETH Zurich, Switzerland | |
| 3:10PM | A High-Speed Real-Time Nanopore Signal Detector [#15073] |
| Yiyun Huang, Sebastian Magierowski, Ebrahim Ghafar-Zadeh and Chengjie Wang | |
| York University, Canada | |
| 3:30PM | Semi-Automated Patient-Specific Scalp EEG Seizure Detection with Unsupervised Machine Learning [#15028] |
| Otis Smart and Michael Chen | |
| Emory University, United States; Georgia Institute of Technology, United States | |
| 3:50PM | Dynamic Ensemble Selection with Local Expertise Consistency [#15100] |
| Yun Zhu, Yanqing Zhang and Yi Pan | |
| Georgia State University, United States | |
| 4:10PM | Identifying Differentially Expressed Transcripts Associated with Prostate Cancer Progression using RNA-Seq and Machine Learning Techniques [#15048] |
| Siva Singireddy, Abed Alkhateeb, Iman Rezaeian, Dora Cavallo-Medved, Lisa Porter and Luis Rueda | |
| University of Windsor, Canada |
CB7: Coffee Break
Friday, August 14, 4:30PM-4:50PM, Room: Niagara
Session J: Modeling, Simulation, and Optimization of Biological Systems
Friday, August 14, 4:50PM-6:30PM, Room: Niagara, Chair: Ananya Das Christman
| 4:50PM | Inferring the Dynamics of Gene Regulatory Networks via Optimized Recurrent Neural Network and Dynamic Bayesian Network [#15081] |
| Arinze Akutekwe and Huseyin Seker | |
| University of Northumbria at Newcastle, United Kingdom | |
| 5:10PM | Bridging the Multiscale Gap: Identifying Cellular Parameters from Multicellular Data [#15082] |
| Qanita Bani Baker, Gregory J. Podgorski, Christopher D. Johnson, Elizabeth Vargis and Nicholas S. Flann | |
| Utah State University, United States | |
| 5:30PM | Matching Models of HIV-1 Viral Dynamics to Clinical Data [#15085] |
| Andrew Adams, Zabrina Brumme, Alexander Rutherford and Ralf Wittenberg | |
| Simon Fraser University, Canada | |
| 5:50PM | Iterative learning cascaded multiclass kernel based support vector machine for neural spike data classification [#15013] |
| Amir Zjajo and Rene van Leuken | |
| Delft University of Technology, Netherlands | |
| 6:10PM | Multimodal Medical Image Registration Using Particle Swarm Optimization with Influence of the Data's Initial Orientation [#15071] |
| Lydia Schwab, Manuel Schmitt and Rolf Wanka | |
| Department of Computer Science, University of Erlangen-Nuremberg, Germany |
BAN: Banquet
Friday, August 14, 7:00PM-9:00PM, Room: Rainbow Salon, Chair: Sheridan Houghten
Special Session Z1&Z5: Multiobjective Optimization and Decision-Making in Bioinformatics and Bioengineering & Side Effect Machines for Sequence Analysis
Saturday, August 15, 8:00AM-9:40AM, Room: Niagara, Chair: Richard Allmendinger
| 8:00AM | Evolving DNA Classifiers with Extinction Based Ring Optimization [#15068] |
| Daniel Ashlock, Sierra Gillis, Jennifer Garner and Gary Fogel | |
| University of Guelph, Canada; Natural Selection Incorporated, United States | |
| 8:20AM | On Side Effect Machines as a Representation for Evolutionary Algorithms [#15096] |
| Joseph Brown | |
| Innopolis University, Russia | |
| 8:40AM | Chaos Automata for Sequence Visualization [#15103] |
| Daniel Ashlock, Cameron McGuinness and Wendy Ashlock | |
| University of Guelph, Canada; York University, Canada | |
| 9:00AM | A Multi objective Approach to Evolving Artificial Neural Networks for Coronary Heart Disease Classification [#15040] |
| Alex Shenfield and Shahin Rostami | |
| Sheffield Hallam University, United Kingdom; Bournemouth University, United Kingdom | |
| 9:20AM | Using Multi-Objective Genetic Programming to Evolve Stochastic Logic Gate Circuits [#15025] |
| Brian Ross | |
| Brock University, Canada |
CB8: Coffee Break
Saturday, August 15, 9:40AM-10:00AM, Room: Niagara
Special Session Z2: Gene Ontology and Applications
Saturday, August 15, 10:00AM-11:40AM, Room: Niagara, Chair: Anurag Nagar
| 10:00AM | A Visual Spreadsheet using HTML5 for Whole Genome Display [#15044] |
| Nada Alhirabi and Gregory Butler | |
| King Saud University, Saudi Arabia; Concordia University, Canada | |
| 10:20AM | Association Rule Mining of Gene Ontology Annotation Terms for SGD [#15032] |
| Anurag Nagar, Michael Hahsler and Hisham Al-Mubaid | |
| University of Houston - Clear Lake, United States; Southern Methodist University, United States | |
| 10:40AM | A Hybrid Semantic Similarity Measure for Gene Ontology Based On Offspring and Path Length [#15033] |
| Anurag Nagar and Hisham Al-Mubaid | |
| University of Houston - Clear Lake, United States | |
| 11:00AM | Exploiting Information Content and Semantics to Accurately Computing Similarity of GO-based Annotated Entities [#15059] |
| Ignacio Traverso-Ribon and Maria-Esther Vidal | |
| FZI Research Center for Information Technology, Germany; Universidad Simon Bolivar, Venezuela | |
| 11:20AM | Exploiting Modularity and Hierarchical Modularity to Infer Large Causal Gene Regulatory Network [#15075] |
| Leung-Yau Lo, Man-Leung Wong, Kin-Hong Lee and Kwong-Sak Leung | |
| Department of Computer Science and Engineering, The Chinese University of Hong Kong, Hong Kong, Hong Kong; Department of Computing and Decision Sciences, Lingnan University, Tuen Mun, Hong Kong, Hong Kong |
CB9: Coffee Break
Saturday, August 15, 11:40AM-12:00PM, Room: Niagara
Session P: Biomedical Data Modeling and Mining
Saturday, August 15, 12:00PM-1:20PM, Room: Niagara, Chair: Steven Corns
| 12:00PM | Automated Classification of Author's Sentiments in Citation Using Machine Learning Techniques: A Preliminary Study [#15077] |
| In Cheol Kim and George Thoma | |
| Lister Hill National Center for Biomedical Communications, National Library of Medicine, United States | |
| 12:20PM | Predicting Cassette Exons Using Transductive Learning Approaches [#15080] |
| Ana Stanescu and Doina Caragea | |
| Kansas State University, United States | |
| 12:40PM | Sorting the Phenotypic Heterogeneity of Autism Spectrum Disorders: a Hierarchical Clustering Model [#15101] |
| Tayo Obafemi-Ajayi, Dao Lam, T. Nicole Takahashi, Stephen Kanne and Donald Wunsch | |
| Missouri University of Science and Technology, United States; University of Missouri Thompson Center for Autism and Neurodevelopmental Disorders, United States | |
| 1:00PM | Granular Computing Approach for the Design of Medical Data Classification Systems [#15087] |
| Mohammed Al-Shammaa and Maysam F. Abbod | |
| Brunel University, United Kingdom |