Table of Contents

• TOMAS: A novel TOpology-aware Meta-Analysis approach applied to System biologyTin Nguyen, Diana Diaz, Sorin Draghici. 13-22 [doi]
• A Multi-Objective Flow Cytometry Profiling for B-Cell Lymphoma DiagnosisShou-Hsuan Stephen Huang, Ming-Chih Shih, Youli Zu. 23-31 [doi]
• Classification of Helpful Comments on Online Suicide Watch ForumsRamakanth Kavuluru, María Ramos-Morales, Tara Holaday, Amanda G. Williams, Laura Haye, Julie Cerel. 32-40 [doi]
• Mining Discriminative Patterns to Predict Health Status for Cardiopulmonary PatientsQian Cheng, Jingbo Shang, Joshua Juen, Jiawei Han, Bruce R. Schatz. 41-49 [doi]
• Recovering Bound Forms of Protein Structures Using the Elastic Network Model and Molecular Interaction FieldsDario Ghersi, Roberto Sanchez. 50-57 [doi]
• Applications of Secure Location Sensing in HealthcarePaul D. Martin 0002, Michael Rushanan, Thomas Tantillo, Christoph U. Lehmann, Aviel D. Rubin. 58-67 [doi]
• Reference-free comparison of microbial communities via de Bruijn graphsSerghei Mangul, David Koslicki. 68-77 [doi]
• HAPI-Gen: Highly Accurate Phasing and Imputation of Genotype DataOlivia Choudhury, Ankush Chakrabarty, Scott J. Emrich. 78-87 [doi]
• Text Classification with Topic-based Word Embedding and Convolutional Neural NetworksHaotian Xu, Ming Dong, Dongxiao Zhu, Alexander Kotov, April Idalski Carcone, Sylvie Naar-King. 88-97 [doi]
• Detecting Communities in Biological Bipartite NetworksPaola Pesantez-Cabrera, Ananth Kalyanaraman. 98-107 [doi]
• TAPESTRY: Network-centric Target Prioritization in Disease-related Signaling NetworksHuey-Eng Chua, Sourav S. Bhowmick, Jie Zheng, Lisa Tucker-Kellogg. 108-117 [doi]
• Development of a Scalable Method for Creating Food Groups Using the NHANES Dataset and MapReduceMichael R. Wyatt II, Travis Johnston, Mia Papas, Michela Taufer. 118-127 [doi]
• Sample-based Models of Protein Structural TransitionsTatiana Maximova, Daniel Carr, Erion Plaku, Amarda Shehu. 128-137 [doi]
• Investigating Multiview and Multitask Learning Frameworks for Predicting Drug-Disease AssociationsSai Nivedita Chandrasekaran, Alexios Koutsoukas, Jun Huan. 138-145 [doi]
• Statistical Framework for Uncertainty Quantification in Computational Molecular ModelingMuhibur Rasheed, Nathan Clement, Abhishek Bhowmick 0001, Chandrajit Bajaj. 146-155 [doi]
• Automatic Detection of Beta-barrel from Medium Resolution Cryo-EM Density MapsDong-Si. 156-164 [doi]
• Gene Expression Based Computation Methods for Alzheimer's Disease Progression using Hippocampal Volume Loss and MMSE ScoresAydin Saribudak, Adarsha A. Subick, Joshua A. Rutta, M. Ümit Uyar. 165-174 [doi]
• InterVisAR: An Interactive Visualization for Association Rule SearchChihwen Cheng, Ying Sha, May D. Wang. 175-184 [doi]
• Detecting Anomalies in Alert Firing within Clinical Decision Support Systems using Anomaly/Outlier Detection TechniquesSoumi Ray, Adam Wright. 185-190 [doi]
• CloudControl: Leveraging many public ChIP-seq control experiments to better remove background noiseNaozumi Hiranuma, Scott Lundberg, Su-In Lee. 191-199 [doi]
• Predictive Modeling of Drug Effects on Signaling Pathways in Diverse Cancer Cell LinesShital Kumar Mishra, Sourav S. Bhowmick, Huey-Eng Chua, Jie Zheng. 200-209 [doi]
• Influence Function of Multiple Kernel Canonical Analysis to Identify Outliers in Imaging Genetics DataMd. Ashad Alam, Vince D. Calhoun, Yu-Ping Wang. 210-219 [doi]
• Stability Analysis of Population Dynamics Model in Microbial Biofilms with Non-participating StrainsJeet Banerjee, Tanvi Ranjan, Ritwik Kumar Layek. 220-230 [doi]
• Counting independent motifs in probabilistic networksAisharjya Sarkar, Yuanfang Ren, Rasha Elhesha, Tamer Kahveci. 231-240 [doi]
• A Fast Sketch-based Assembler for GenomesPriyanka Ghosh, Ananth Kalyanaraman. 241-250 [doi]
• De novo identification of cell type hierarchy with application to compound marker detectionShahin Mohammadi, Ananth Grama. 251-260 [doi]
• A Hybrid Stochastic Model of the Budding Yeast Cell Cycle Control MechanismShuo Wang, Mansooreh Ahmadian, Minghan Chen, John J. Tyson, Young Cao. 261-270 [doi]
• Scalable Algorithms at Genomic Resolution to fit LD DistributionsLaxmi Parida, Niina Haiminen. 271-278 [doi]
• Robust Kernel Canonical Correlation Analysis to Detect Gene-Gene Interaction for Imaging Genetics DataMd. Ashad Alam, Osamu Komori, Vince D. Calhoun, Yu-Ping Wang. 279-288 [doi]
• Prioritizing Adverse Drug Reaction and Drug Repositioning Candidates Generated by Literature-Based DiscoveryMajid Rastegar-Mojarad, Ravikumar Komandur Elayavilli, Liwei Wang, Rashmi Prasad, Hongfang Liu. 289-296 [doi]
• Exact Algorithms for Duplication-Transfer-Loss Reconciliation with Non-Binary Gene TreesMisagh Kordi, Mukul S. Bansal. 297-306 [doi]
• OCoM-SOCoM: Combinatorial Mutagenesis Library Design Optimally Combining Sequence and Structure InformationDeeptak Verma, Gevorg Grigoryan, Chris Bailey-Kellogg. 307-316 [doi]
• Mining Novel Knowledge from Biomedical Literature using Statistical Measures and Domain KnowledgeKishlay Jha, Wei Jin. 317-326 [doi]
• Bipartite matching generalizations for peptide identification in tandem mass spectrometryWenruo Bai, Jeffrey A. Bilmes, William S. Noble. 327-336 [doi]
• A Novel Temporal Similarity Measure for Patients Based on Irregularly Measured Data in Electronic Health RecordsYing Sha, Janani Venugopalan, May D. Wang. 337-344 [doi]
• Name Similarity for Composite Element Name MatchingNaveen Ashish, Arihant Patawari, Simrat Singh Chhabra, Arthur W. Toga. 345-354 [doi]
• Effective Utilization of Paired Reads to Improve Length and Accuracy of Contigs in Genome AssemblyRahul Nihalani, Srinivas Aluru. 355-363 [doi]
• Library-Based Microbial Source Tracking via Strain IdentificationJeffrey D. McGovern, Eric Johnson, Alex Dekhtyar, Michael Black, Chris Kitts, Jennifer Vanderkelen. 364-373 [doi]
• Robinson-Foulds Median Trees: A Clique-based HeuristicJucheol Moon, Oliver Eulenstein. 374-383 [doi]
• Computational Framework for in-Silico Study of Virtual Cell Biology via Process Simulation and Multiscale ModelingHanyu Jiang, Morisa Manzella, Luka Djapic, Narayan Ganesan. 384-393 [doi]
• Risk Factor Analysis Based on Deep Learning ModelsQiuling Suo, Hongfei Xue, Jing Gao, Aidong Zhang. 394-403 [doi]
• Manhattan Path-Difference Median TreesAlexey Markin, Oliver Eulenstein. 404-413 [doi]
• POMP: a powerful splice mapper for RNA-seq readsSubrata Saha, Sanguthevar Rajasekaran. 414-421 [doi]
• Kmerind: A Flexible Parallel Library for K-mer Indexing of Biological Sequences on Distributed Memory SystemsTony Pan, Patrick Flick, Chirag Jain, Yongchao Liu, Srinivas Aluru. 422-433 [doi]
• deepTarget: End-to-end Learning Framework for microRNA Target Prediction using Deep Recurrent Neural NetworksByunghan Lee, Junghwan Baek, Seunghyun Park, Sungroh Yoon. 434-442 [doi]
• PaReCat: Patient Record Subcategorization for Precision Traditional Chinese MedicineEdward W. Huang, Sheng Wang, Runshun Zhang, Baoyan Liu, Xuezhong Zhou, ChengXiang Zhai. 443-452 [doi]
• Multiscale Approximation with Graphical Processing Units for Multiplicative Speedup in Molecular DynamicsRamu Anandakrishnan, Mayank Daga, Alexey Onufriev, Wu-chun Feng. 453-462 [doi]
• Integrated Identification of Disease-Gene Links and their Utility in Next-Generation Sequencing InterpretationNoa Rappaport, Michal Twik, Ron Nudel, Inbar Plaschkes, Tsippi Iny Stein, Danit Oz-Levi, Simon Fishilevich, Marilyn Safran, Doron Lancet. 463-464 [doi]
• Introducing a Text Annotation Tool (OntoMate), Assisting Curation at Rat Genome DatabaseOmid Ghiasvand, Mary Shimoyama. 465 [doi]
• WeSME: Uncovering Mutual Exclusivity of Cancer MutationsYoo Ah Kim, Sanna Madan, Teresa M. Przytycka. 466 [doi]
• Multidimensional Stochastic Process Model and its Applications to Analysis of Longitudinal Data with Genetic InformationIlya Zhbannikov, Konstantin G. Arbeev, Anatoliy I. Yashin. 467-468 [doi]
• Advanced Feature-Driven Disease Named Entity Recognition Using Conditional Random FieldsHidayat Rahman, Thomas Hahn, Richard S. Segall. 469 [doi]
• Model-based study of the Effectiveness of Reporting Lists of Small Feature Sets using RNA-Seq DataEunji Kim, Ivan Ivanov, Jianping Hua, Robert S. Chapkin, Edward R. Dougherty. 470-471 [doi]
• Automated Capture of Naturalistic Child Vocalizations for Health ResearchHasini Yatawatte, Christian Poellabauer, Susan Latham. 472-473 [doi]
• A Machine Learning Model for Discovery of Protein Isoforms as BiomarkersManal Alshehri, Iman Rezaeian, Abed Alkhateeb, Luis Rueda. 474-475 [doi]
• Integrated Visualization Tool for Differentially Expressed Genes and Gene Ontology AnalysisSomyung Oh, Jeonghyeon Ha, Kyungwon Lee, Sejong Oh. 476-477 [doi]
• The TB-IRIS neutrophil proteome: bioinformatic challengesJ. M. Peyper, N. F. Walker, R. J. Wilkinson, G. A. Meintjes, J. M. Blackburn. 478 [doi]
• Metric-space Positioning Systems (MPS) for Machine LearningRichard C. Tillquist, Manuel E. Lladser. 479 [doi]
• The CMH Warehouse: A Catalog of Genetic Variation in Patients of a Children's HospitalNeil Miller, Byunggil Yoo, Greyson Twist, Shane Corder. 480 [doi]
• Kinetic and Affinity Constraints on Reactions Between Antihapten Antibodies and Nonpeptidic B-Cell Epitopes: Implications for Predicting Antibody-Mediated Modulation of Pharmacokinetics and PharmacodynamicsSalvador Eugenio C. Caoili. 481-482 [doi]
• Smart Refrigerator for Healthcare Using Food Image ClassificationTaein Kwon, Eunjeong Park, Hyukjae Chang. 483-484 [doi]
• Analysis of Neurooncological Data to Predict Success of Operation Through ClassificationNegin Bagherzadi, Alp Ozgun Borcek, Gül Tokdemir, Nergiz Ercil Cagiltay, H. Hakan Maras. 485-486 [doi]
• Characterizing the Role of Environment on Phenotypic Traits using Topological Data AnalysisMethun Kamruzzaman, Ananth Kalyanaraman, Bala Krishnamoorthy. 487-488 [doi]
• Sequence Based Prediction of Hospital ReadmissionsSurabhi Agrawal, Chun Pan Hon, Swati Garg, Aadarsh Sampath, Shanu Sushmita, Martine De Cock. 489-490 [doi]
• Risk Stratification for Hospital Readmission of Heart Failure Patients: A Machine Learning ApproachChun Pan Hon, Mayana Pereira, Shanu Sushmita, Ankur Teredesai, Martine De Cock. 491-492 [doi]
• Time to Reactivation of Latent Tuberculosis Infection Varies by LineageNick Thieme, Kristin P. Bennett. 493-494 [doi]
• A Gaussian Process Model for Inferring the Dynamic Transcription Factor ActivityMuhammad Arifur Rahman, Neil D. Lawrence. 495-496 [doi]
• Prediction of Cell Type Specific Transcription Factor Binding Site OccupancyFaizy Ahsan, Doina Precup, Mathieu Blanchette. 497-498 [doi]
• Limitations of Current Approaches for Reference-Free, Graph-Based Variant DetectionAmelia Bateman, Todd J. Treangen, Mihai Pop. 499-500 [doi]
• A Last Genetic Contact Tree Generation Algorithm for a Set of Human PopulationsPeter Z. Revesz. 501-502 [doi]
• Modeling Cell Signaling Networks with Prize-Collecting SubhypernetworksBarney Potter, James D. Fix, Anna M. Ritz. 503-504 [doi]
• Copy Number Variation and Adaptive Evolutionary Radiations across the African Cichlid phylogenyKarl Menzel, Suzy C. P. Renn, Anna Ritz. 505-506 [doi]
• An integrative analysis of ATAC-seq and RNA-seq data in activated, CD4+CD45RO+CD196+ human T cells treated with IL-1B and IL-23 with or without PGE2Ting Wang, Richard H. Duerr, Wei Chen. 507 [doi]
• Phenotyping Intensive Care Unit Patients Using Temporal Abstractions and Temporal Pattern MatchingClaudio Daza, Josefa Santa Maria, Ignacio Gomez, Mario Barbe, Javier Trincado, Daniel Capurro. 508-509 [doi]
• Adaptive Local Realignment via Parameter AdvisingDan F. DeBlasio, John D. Kececioglu. 510-511 [doi]
• Health Care Needs of Underserved Populations in the City of IndianapolisIman Mohammadi, Seyedsasan Hashemikhabir, Tammy Toscos, Huanmei Wu. 512-513 [doi]
• Reconstructing Neuronal Signaling Pathways With the Potential for Disruption in SchizophreniaNicole Ezell, Anna M. Ritz. 514-515 [doi]
• Noninvasive Cancer Classification Using Diverse Genomic Features in Circulating Tumor DNAMohammad Shahrokh Esfahani, Aaron M. Newman, Florian Scherer, Robert Tibshirani, Maximilian Diehn, Ash A. Alizadeh. 516 [doi]
• Machine learning techniques predict and characterize toxicity between different multi-walled carbon nanotubesNaveena Yanamala, Lindsey M. Bishop, Vamsi K. Kodali, Patti C. Zeidler-Erdely, Aaron D. Erdely. 517 [doi]
• Visual analytics on the spread of pathogensJulien Herrmann, Zachary L. Witter, Nakul Patel, Jonathan Kho, Daniel A. Janies, Ümit V. Çatalyürek. 519-520 [doi]
• MoBaS on Phosphorylation DataMarzieh Ayati, Danica Wiredja, Daniela Schlatzer, Goutham Narla, Mark R. Chance, Mehmet Koyutürk. 521 [doi]
• Sparse Feature Selection for Classification and Prediction of Metastasis in Endometrial Cancer: Extended AbstractMehmet Eren Ahsen, Todd P. Boren, Nitin K. Singh, Burook Misganaw, Jayanthi S. Lea, David S. Miller, Michael A. White, Mathukumalli Vidyasagar. 522-524 [doi]
• Stochastic Modeling and Simulation of Reaction-Diffusion System with Hill Function DynamicsMinghan Chen, Fei Li, Shuo Wang, Yang Cao. 525-526 [doi]
• DIGNiFI: Discovering causative genes for orphan diseases using protein-protein interaction networksXiaoxia Liu, Zhihao Yang, Hongfei Lin, Michael Simmons, Zhiyong Lu. 527 [doi]
• Inferring Microbial Interaction Networks from Metagenomic Data Using SgLV-EKF AlgorithmMustafa Alshawaqfeh, Ahmad Bani Younes, Erchin Serpedin. 528 [doi]
• Towards targeted combinatorial therapy design for the treatment of castration-resistant prostate cancerOsama A. Arshad, Aniruddha Datta. 529 [doi]
• Combination therapy design for maximizing sensitivity and minimizing toxicityKevin Matlock, Noah Berlow, Charles Keller, Ranadip Pal. 530-531 [doi]
• Interpretive Time-Frequency Analysis of Genomic SequencesHamed Hassani-Saadi, Reza Sameni, Amin Zollanvari. 532 [doi]
• Comparison of tissue/disease specific integrated networks using directed graphlet signaturesArzu Burcak Sonmez, Tolga Can. 533-534 [doi]
• SEQUOIA: Significance enhanced network querying through context-sensitive random walk and minimization of network conductanceHyundoo Jeong, Byung-Jun Yoon. 535-536 [doi]
• Finding Low-Conductance sets with Dense interactions (FLCD) for better protein complex predictionYijie Wang, Xiaoning Qian. 537-538 [doi]
• Comprehensive Evaluation of RNA-seq Quantification Methods for LinearityHaijing Jin, Ying-Wooi Wan, Zhandong Liu. 539 [doi]
• Multiple Sclerosis Biomarker Discovery via Bayesian Feature SelectionAli Foroughi Pour, Lori A. Dalton. 540-541 [doi]
• Inference of Nonlinear ODE-Based Gene Regulatory Networks via Intrinsically Bayesian Robust Kalman FilteringRoozbeh Dehghannasiri, Mohammad Shahrokh Esfahani, Edward R. Dougherty. 542-543 [doi]
• Statistical and Network Analysis of Metabolomics DataEhsan Ullah, Raghvendra Mall, Reda Rawi, Halima Bensmail. 544-545 [doi]
• Exploration of regression models for cancer noncoding mutation recurrenceTanjin Xu, Stephen A. Ramsey. 546-553 [doi]
• Optimization of I/O Intensive Genome Assemblies on the Cori Supercomputer with Burst BufferJoshua Pritchett, Bill Andreopoulos. 554-561 [doi]
• Explorations in Very Early Prognosis of the Human Immune Response to InfluenzaMmanu Chaturvedi, Tomojit Ghosh, Michael Kirby, Xiaoyu Liu, Xiaofeng Ma, Shannon Stiverson. 562-570 [doi]
• Using a Semi-Automated Modeling Environment to Construct a Bayesian, Sepsis Diagnostic SystemPeter J. Haug, Jeffrey P. Ferraro. 571-578 [doi]
• Automatic Identification of Co-Occuring Patient EventsAlexander Titus, Rebecca Faill, Amar Das. 579-586 [doi]
• On Interestingness Measures for Mining Statistically Significant and Novel Clinical Associations from EMRsOrhan Abar, Richard J. Charnigo, Abner Rayapati, Ramakanth Kavuluru. 587-594 [doi]
• Automated Verification of Phenotypes using PubMedRyan Bridges, Jette Henderson, Joyce C. Ho, Byron C. Wallace, Joydeep Ghosh. 595-602 [doi]
• Predicting Future Frequent Users of Emergency Departments in California StateMayana Pereira, Vikhyati Singh, Chun Pan Hon, T. Greg McKelvey, Shanu Sushmita, Martine De Cock. 603-610 [doi]
• Predicting human-immunodeficiency virus rebound after therapy initiation/switch using genetic, laboratory, and clinical dataMattia C. F. Prosperi, Alejandro Pironti, Francesca Incardona, Giuseppe Tradigo, Maurizio Zazzi. 611-615 [doi]
• Feature Selection Model for Diagnosis, Electronic Medical Records and Geographical Data CorrelationGiovanni Canino, Qiuling Suo, Pietro Hiram Guzzi, Giuseppe Tradigo, Aidong Zhang, Pierangelo Veltri. 616-621 [doi]
• Sub-network Based Kernels for Brain Network ClassificationBiao Jie, Mingxia Liu, Xi Jiang, Daoqiang Zhang. 622-629 [doi]
• Hierarchical Spatio-temporal Visual Analysis of Cluster Evolution in Electrocorticography DataSugeerth Murugesan, Kristofer E. Bouchard, Edward F. Chang, Max Dougherty, Bernd Hamann, Gunther H. Weber. 630-639 [doi]
• ENIGMA-Viewer: Interactive Visualization Strategies for Conveying Effect Sizes in Meta-AnalysisGuohao Zhang, Peter V. Kochunov, L. Elliot Hong, Neda Jahanshad, Paul M. Thompson, Jian Chen. 640-648 [doi]
• Using Network Alignment for Analysis of Connectomes: Experiences from a Clinical DatasetMarianna Milano, Olga Tymofiyeva, Duan Xu, Christopher P. Hess, Mario Cannataro, Pietro Hiram Guzzi. 649-656 [doi]
• High-performance data structures for de novo assembly of genomes: cache oblivious generic programmingFranco Milicchio, Giuseppe Tradigo, Pierangelo Veltri, Mattia C. F. Prosperi. 657-662 [doi]
• G-quadruplex Structure Prediction and integration in the GenData2020 data modelGiuseppe Tradigo, Francesca Cristiano, Stefano Alcaro, Sergio Greco, Gianluca Pollastri, Pierangelo Veltri, Mattia C. F. Prosperi. 663-670 [doi]
• A Multithreaded Algorithm for Mining Maximal Cohesive Dense Modules from Interaction Networks with Gene ProfilesAditya Goparaju, Saeed Salem. 671-678 [doi]