Abstract is missing.
- New Machine Learning Algorithms for Genome AnnotationMark Borodovsky. 1 [doi]
- Decoding Epigenomic Programs in Immunity and CancerChristina S. Leslie. 2-3 [doi]
- Large-Scale Machine Learning Algorithms for Biomedical Data ScienceHeng Huang. 4 [doi]
- ENCORE: A Visualization Tool for Insight into Circadian OmicsHannah De Los Santos, Kristin P. Bennett, Jennifer M. Hurley. 5-14 [doi]
- A Visual Analytics Framework for Analysis of Patient TrajectoriesKaniz Fatema Madhobi, Methun Kamruzzaman, Ananth Kalyanaraman, Eric Lofgren, Rebekah Moehring, Bala Krishnamoorthy. 15-24 [doi]
- Drug Repositioning Predictions by Non-Negative Matrix Tri-Factorization of Integrated Association DataGaëtan Dissez, Gaia Ceddia, Pietro Pinoli, Stefano Ceri, Marco Masseroli. 25-33 [doi]
- Model-Agnostic Interpretation of Cancer Classification with Multi-Platform Genomic DataOlatunji Oni, Sanzheng Qiao. 34-41 [doi]
- Human Protein Complex Signatures for Drug RepositioningFei Wang, Xiujuan Lei, Bo Liao, Fang-Xiang Wu. 42-50 [doi]
- Majority Vote Cascading: A Semi-Supervised Framework for Improving Protein Function PredictionJohn Lazarsfeld, Jonathan Rodríguez, Mert Erden, Yuelin Liu, Lenore J. Cowen. 51-60 [doi]
- GANDALF: A Prototype of a GAN-based Peptide Design MethodAllison M. Rossetto, Wenjin Zhou. 61-66 [doi]
- Large-scale Analysis of Drug Combinations by Integrating Multiple Heterogeneous Information NetworksHuiyuan Chen, Sudha K. Iyengar, Jing Li. 67-76 [doi]
- Robinson-Foulds Reticulation NetworksAlexey Markin, Tavis K. Anderson, Venkata Sai Krishna Teja Vadali, Oliver Eulenstein. 77-86 [doi]
- Network-Based Modeling of Sepsis: Quantification and Evaluation of Simultaneity of Organ DysfunctionsAli Jazayeri, Muge Capan, Christopher Yang, Farzaneh Khoshnevisan, Min Chi, Ryan Arnold. 87-96 [doi]
- Finding Conserved Patterns in Multilayer NetworksYuanfang Ren, Aisharjya Sarkar, Ahmet Ay, Alin Dobra, Tamer Kahveci. 97-102 [doi]
- Multiple Graph Kernel Fusion Prediction of Drug PrescriptionHao-Ren Yao, Der-Chen Chang, Ophir Frieder, Wendy Huang, Tian-Shyug Lee. 103-112 [doi]
- Drug-Drug Interaction Prediction Based on Knowledge Graph Embeddings and Convolutional-LSTM NetworkMd. Rezaul Karim, Michael Cochez, Joao Bosco Jares, Mamtaz Uddin, Oya Deniz Beyan, Stefan Decker. 113-123 [doi]
- Feedback Regulation of Immune Response to Maximum Exercise in Gulf War IllnessCole A. Lyman, Mark J. Clement, Travis J. A. Craddock, Mary Fletcher, Nancy G. Klimas, Gordon Broderick. 124-129 [doi]
- Automate the Peripheral Arterial Disease Prediction in Lower Extremity Arterial Doppler Study using Machine Learning and Neural NetworksLena Ara, Xiao Luo, Alan Sawchuk, Dave Rollins. 130-135 [doi]
- Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional TransformersZhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang. 136-143 [doi]
- Integration of Heterogeneous Experimental Data Improves Global Map of Human Protein ComplexesJose Lugo-Martinez, Jörn Dengjel, Ziv Bar-Joseph, Robert F. Murphy. 144-153 [doi]
- Using Sequence-Predicted Contacts to Guide Template-free Protein Structure PredictionAhmed Bin Zaman, Prasanna Venkatesh Parthasarathy, Amarda Shehu. 154-160 [doi]
- Automated Threshold Selection for Cryo-EM Density MapsJonas Pfab, Dong-Si. 161-166 [doi]
- Practical Universal k-mer Sets for Minimizer SchemesDan F. DeBlasio, Fiyinfoluwa Gbosibo, Carl Kingsford, Guillaume Marçais. 167-176 [doi]
- MitoMut: An Efficient Approach to Detecting Mitochondrial DNA Deletions from Paired-end Next-generation Sequencing DataC. Shane Elder, Catherine E. Welsh. 177-182 [doi]
- ELITE: Efficiently Locating Insertions of Transposable ElementsAnwica Kashfeen, Harper B. Fauni, Timothy A. Bell, Fernando Pardo-Manuel de Villena, Leonard McMillan. 183-189 [doi]
- A Deep Learning Approach to Phase-Space Analysis for Seizure DetectionPatrick Luckett, Thomas Watts, Jeffrey Todd McDonald, Lee M. Hively, Ryan Benton. 190-196 [doi]
- Deep Learning for High-Order Drug-Drug Interaction PredictionBo Peng, Xia Ning. 197-206 [doi]
- Integrative Feature Ranking by Applying Deep Learning on Multi Source Genomic DataFariba Khoshghalbvash, Jean X. Gao. 207-216 [doi]
- A Sparse Convolutional Predictor with Denoising Autoencoders for Phenotype PredictionJunjie Chen, Xinghua Shi. 217-222 [doi]
- PEARL: Prototype Learning via Rule LearningTianfan Fu, Tian Gao, Cao Xiao, Tengfei Ma, Jimeng Sun. 223-232 [doi]
- Influenza-Like Symptom Prediction by Analyzing Self-Reported Health Status and Human Mobility BehaviorsFenglong Ma, Shiran Zhong, Jing Gao 0004, Ling Bian. 233-242 [doi]
- Time-series as Background Data for Relating Medical Diagnoses TermsSaket Gurukar, Srikanta Bedathur. 243-252 [doi]
- Multi-modal Predictive Models of Diabetes ProgressionRamin Ramazi, Christine Perndorfer, Emily Soriano, Jean-Philippe Laurenceau, Rahmatollah Beheshti. 253-258 [doi]
- Unexpected Predictors of Antibiotic Resistance in Housekeeping Genes of Staphylococcus AureusMattia C. F. Prosperi, Taj Azarian, Judith A. Johnson, Marco Salemi, Franco Milicchio, Marco Oliva. 259-268 [doi]
- Gene Set Databases: A Fountain of Knowledge or a Siren Call?Farhad Maleki, Katie Ovens, Ian McQuillan, Elham Rezaei, Alan M. Rosenberg, Anthony J. Kusalik. 269-278 [doi]
- PhenoGeneRanker: A Tool for Gene Prioritization Using Complete Multiplex Heterogeneous NetworksCagatay Dursun, Naoki Shimoyama, Mary Shimoyama, Michael Schläppi, Serdar Bozdag. 279-288 [doi]
- Exponentially Few RNA Structures are DesignableHua-Ting Yao, Cédric Chauve, Mireille Régnier, Yann Ponty. 289-298 [doi]
- SAU-Net: A Universal Deep Network for Cell CountingYue Guo, Jason L. Stein, Guorong Wu 0001, Ashok Krishnamurthy. 299-306 [doi]
- Biomedical Mention Disambiguation using a Deep Learning ApproachChih-Hsuan Wei, Kyubum Lee, Robert Leaman, Zhiyong Lu. 307-313 [doi]
- Deep Convolutional Neural Network for Automated Detection of Mind Wandering using EEG SignalsSeyedroohollah Hosseini, Xuan Guo. 314-319 [doi]
- Extraction of Tumor Site from Cancer Pathology Reports using Deep FiltersAbhishek K. Dubey, Jacob D. Hinkle, J. Blair Christian, Georgia D. Tourassi. 320-327 [doi]
- NamedKeys: Unsupervised Keyphrase Extraction for Biomedical DocumentsZelalem Gero, Joyce C. Ho. 328-337 [doi]
- Learning Electronic Health Records through Hyperbolic Embedding of Medical OntologiesQiuhao Lu, Nisansa de Silva, Sabin Kafle, Jiazhen Cao, Dejing Dou, Thien Huu Nguyen, Prithviraj Sen, Brent Hailpern, Berthold Reinwald, Yunyao Li 0001. 338-346 [doi]
- Network Analysis and Recommendation for Infectious Disease Clinical Trial ResearchMagdalyn E. Elkin, Whitney Angelica Andrews, Xingquan Zhu. 347-356 [doi]
- Predicting G-Quadruplexes from DNA Sequences Using Multi-Kernel Convolutional Neural NetworksMira Barshai, Yaron Orenstein. 357-365 [doi]
- miRDriver: A Tool to Infer Copy Number Derived miRNA-Gene Networks in CancerBanabithi Bose, Serdar Bozdag. 366-375 [doi]
- Pre-Phaser: Precise Cell-Cycle Phase Detector for scRNA-seqAlisa Yurovsky, Bruce Futcher, Steven Skiena. 376-382 [doi]
- Multivariate Multi-step Deep Learning Time Series Approach in Forecasting Parkinson's Disease Future Severity ProgressionNur Hafieza Ismail, Mengnan Du, Diego Martinez, Zhe He 0001. 383-389 [doi]
- Dynamic Cluster-based Retrieval and Discovery for Biomedical LiteratureMichael Segundo Ortiz, Heejun Kim, Mengqian Wang, Kazuhiro Seki, Javed Mostafa. 390-396 [doi]
- Extracting Molecular Entities and Their Interactions from Pathway Figures Based on Deep LearningFei He 0005, Duolin Wang, Yulia Innokenteva, Olha Kholod, Dmitriy Shin, Dong Xu 0002. 397-404 [doi]
- Identifying Symptom Clusters in Breast Cancer and Colorectal Cancer Patients using EHR DataPriyanka Gandhi, Xiao Luo, Susan Storey, Zuoyi Zhang, Zhi Han, Kun Huang 0004. 405-413 [doi]
- PPPred: Classifying Protein-phenotype Co-mentions Extracted from Biomedical LiteratureMorteza Pourreza Shahri, Gillian Reynolds, Mandi Marie Roe, Indika Kahanda. 414-422 [doi]
- Copy Number Variation Detection Using Total VariationFatima Zare, Sheida Nabavi. 423-428 [doi]
- SMILES-BERT: Large Scale Unsupervised Pre-Training for Molecular Property PredictionSheng Wang, Yuzhi Guo, Yuhong Wang, Hongmao Sun, JunZhou Huang. 429-436 [doi]
- Effective Clustering for Single Cell Sequencing Cancer DataSimone Ciccolella, Murray D. Patterson, Paola Bonizzoni, Gianluca Della Vedova. 437-446 [doi]
- ParRefCom: Parallel Reference-based Compression of Paired-end Genomics Read DatasetsNagakishore Jammula, Srinivas Aluru. 447-456 [doi]
- Using a Novel Negative Selection Inspired Anomaly Detection Algorithm to Identify Corrupted Ribo-seq and RNA-seq SamplesPatrick Perkins, Steffen Heber. 457-465 [doi]
- Learning to Evaluate Color Similarity for Histopathology Images using Triplet NetworksAnirudh Choudhary, Hang Wu, Tong Li, May D. Wang. 466-474 [doi]
- Residual Deep Learning System for Mass Segmentation and Classification in MammographyDina Abdelhafiz, Sheida Nabavi, Reda Ammar, Clifford Yang, Jinbo Bi. 475-484 [doi]
- Fusion In Breast Cancer Histology ClassificationJuan Vizcarra, Ryan Place, Li Tong, David Gutman, May Dongmei Wang. 485-493 [doi]
- Co-evolving Patterns in Temporal Networks of Varying EvolutionRasha Elhesha, Aisharjya Sarkar, Pietro Cinaglia, Christina Boucher, Tamer Kahveci. 494-503 [doi]
- Scalable Statistical Introgression Mapping Using Approximate Coalescent-Based InferenceQiqige Wuyun, Nicholas W. VanKuren, Marcus Kronforst, Sean P. Mullen, Kevin J. Liu. 504-513 [doi]
- On Inferring Additive and Replacing Horizontal Gene Transfers Through Phylogenetic ReconciliationMisagh Kordi, Soumya Kundu, Mukul S. Bansal. 514-523 [doi]
- Reconstructing Intra-Tumor Heterogeneity via Convex Optimization and Branch-and-Bound SearchShorya Consul, Haris Vikalo. 524-529 [doi]
- Modeling Phytoplankton Movement and Fitness in LakesAmy R. Lazarte, Samuel B. Fey, Anna Ritz. 530 [doi]
- Application of Comparative Biosequence Analysis to Understand Antibiotic Resistance in SuperbugGuinevere Sieradzki, Sabrina Mierswa, Jung Lee. 531 [doi]
- A Novel Workflow for Semi-supervised Annotation of Cell-type Clusters in Mass Cytometry DataAbhinav Kaushik, Diane Dunham, Monali Manohar, Kari C. Nadeau, Sandra Andorf. 532 [doi]
- Evaluation of Five Sentence Similarity Models on Electronic Medical RecordsQingyu Chen, Jingcheng Du, Sun Kim, W. John Wilbur, Zhiyong Lu. 533 [doi]
- Toward a Sequence-Based Physicochemical Approach to Variable-Length B-Cell Epitope Prediction for Antipeptide Paratopes Recognizing Flexibly Disordered Targets: Insights Drawn from Protein Folding Modeled as Polymer CollapseSalvador Eugenio C. Caoili. 534 [doi]
- Scalable Statistical Introgression Mapping Using Approximate Coalescent-Based InferenceQiqige Wuyun, Nicholas W. VanKuren, Marcus Kronforst, Sean P. Mullen, Kevin J. Liu. 535 [doi]
- Contact-assisted Protein Threading: An Evolving New DirectionSutanu Bhattacharya, Debswapna Bhattacharya. 536 [doi]
- Poster: Pangenome-Wide Association Studies with Frequented RegionsBuwani Manuweera, Joann Mudge, Indika Kahanda, Brendan Mumey, Thiruvarangan Ramaraj, Alan Cleary. 537 [doi]
- ℓ0DL: Joint Image Gradient ℓ0-norm With Dictionary Learning for Limited-angle CTMoran Xu, Dianlin Hu, Weiwen Wu. 538 [doi]
- Predicting G-quadruplexes from DNA Sequences Using Multi-Kernel Convolutional Neural NetworksMira Barshai, Yaron Orenstein. 539 [doi]
- A Text-Mining System for Concept Annotation in Biomedical Full Text ArticlesChih-Hsuan Wei, Alexis Allot, Robert Leaman, Zhiyong Lu. 540 [doi]
- Long Non-coding RNA Based Cancer Classification using Deep Neural NetworksAbdullah Al Mamun, Ananda Mohan Mondal. 541 [doi]
- PEARL: Prototype Learning via Rule LearningTianfan Fu, Tian Gao, Cao Xiao, Tengfei Ma, Jimeng Sun. 542 [doi]
- Simulating Uncertainty of Early Warning Scores in Sepsis DetectionAli Jazayeri, Muge Capan, Christopher Yang, Siddhartha Nambiar, Maria E. Mayorga, Julie S. Ivy, Ryan Arnold. 543 [doi]
- Pseudotime Based Analysis of Cancer DynamicsTasmia Aqila, Ananda Mohan Mondal. 544 [doi]
- Community Based Cancer Biomarker Identification from Gene Co-expression NetworkRaihanul Bari Tanvir, Mona Maharjan, Ananda Mohan Mondal. 545 [doi]
- Explanation of Machine Learning Models Using Improved Shapley Additive ExplanationYasunobu Nohara, Koutarou Matsumoto, Hidehisa Soejima, Naoki Nakashima. 546 [doi]
- Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional TransformersZhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang. 547 [doi]
- Introduction to 2019 ACM-BCB Highlights SessionJianlin Cheng. 548 [doi]
- Low-Dimensional Representation of Genomic SequencesRichard C. Tillquist, Manuel E. Lladser. 549 [doi]
- CoPhosK: A Method for Comprehensive Kinase Substrate Annotation using Co-phosphorylation AnalysisMarzieh Ayati, Danica Wiredja, Daniela Schlatzer, Sean Maxwell, Ming Li, Mehmet Koyutürk, Mark R. Chance. 550 [doi]
- Protein Tertiary Structure Modeling Driven by Deep Learning and Contact Distance Prediction in CASP13Jianlin Cheng. 551 [doi]
- Beta-Binomial Modeling of CRISPR Pooled Screen Data Identifies Target Genes with Greater Sensitivity and fewer False NegativesHyun-hwan Jeong, Seon-Young Kim, Maxime W. C. Rousseaux, Huda Y. Zoghbi, Zhandong Liu. 552 [doi]
- How Effective is Contact-assisted Protein Threading?Sutanu Bhattacharya, Debswapna Bhattacharya. 553 [doi]
- Employing Deep Learning to Study BiomoleculesDaniel Veltri, Kevin Molloy. 554 [doi]
- Low-Dimensional Representation of Biological Sequence DataRichard C. Tillquist. 555 [doi]
- Extracting Structure from Contaminated Symbolic DataAntony Pearson. 556 [doi]
- Machine Learning for Biomarker Discovery in Cancer Pharmacogenomics DataArvind Singh Mer, Petr Smirnov, Benjamin Haibe-Kains. 557 [doi]
- Tutorial: Causal Inference in Biomedical Data Analytics - Basics and Recent AdvancesMay D. Wang, Hang Wu. 558 [doi]
- You Wrote It, Now Get It Used: Publishing Your Software with Galaxy and BiocondaDaniel J. Blankenberg, Martin Cech. 559 [doi]
- Integer Linear Programming in Computational and Systems Biology: TutorialDan Gusfield. 560 [doi]
- Workshop on Computational Advances in Molecular EpidemiologyYury Khudyakov, Ion I. Mandoiu, Pavel Skums, Alexander Zelikovsky. 561 [doi]
- Decoy Ensemble Reduction in Template-free Protein Structure PredictionAhmed Bin Zaman, Parastoo Kamranfar, Carlotta Domeniconi, Amarda Shehu. 562-567 [doi]
- PETRA: Protein-ligand Complex Engineering Through Rigidity AnalysisHunter Read, Dylan Carpenter, Sam Herr, Filip Jagodzinski. 568-573 [doi]
- CONSEQUENCES: CONstrained SEQUENCE alignmentS With Multiple User WeightsElizabeth West, Kyle Daling, Courtney Miller, Wes Rosales, Sasa Vukovic, Filip Jagodzinski. 574-579 [doi]
- Trimer Protein-Protein Complex Interface Interacting Residue Pairs Prediction Using Deep Learning ApproachZhenni Zhao, Xinqi Gong. 580-585 [doi]
- A Histogram-based Outlier Profile for Atomic Structures Derived from Cryo-Electron MicroscopyLin Chen, Jing He. 586-591 [doi]
- Learning Reduced Latent Representations of Protein Structure DataFardina Fathmiul Alam, Taseef Rahman, Amarda Shehu. 592-597 [doi]
- Integrating Co-Evolutionary Information in Monte Carlo Based Method for Proteins Trajectory SimulationAmir Vajdi, Arpita Joshi, Nurit Haspel. 598-603 [doi]
- On Conformations of Peptides Bound to Class I Major Histocompatibility ComplexesJinbu Wang, Brian Y. Chen. 604-610 [doi]
- A Volumetric Survey of Cavities and Electrostatic Patterns in Protein-RNA Binding SitesDevan Bicher, Brian Y. Chen. 611-617 [doi]
- Workshop on Microbiomics, Metagenomics, and MetabolomicsSoha Hassoun, Yasser El-Manzalawy, Georg Gerber, David Koslicki, Gail Rosen. 618 [doi]
- An Integrated Approach for Efficient Multi-Omics Joint AnalysisMassimiliano S. Tagliamonte, Sheldon G. Waugh, Mattia Prosperi, Volker Mai. 619-625 [doi]
- Machine Learning Approach for Predicting Metastatic Sites of Prostate CancerTarik El Amsy. 626 [doi]
- Pangenome-Wide Association Studies with Frequented RegionsBuwani Manuweera, Joann Mudge, Indika Kahanda, Brendan Mumey, Thiruvarangan Ramaraj, Alan Cleary. 627-632 [doi]
- A Gene-disease-based Machine Learning Approach to Identify Prostate Cancer BiomarkersOsama Hamzeh, Luis Rueda. 633-638 [doi]
- A Network-based Machine Learning Approach for Identifying Biomarkers of Breast Cancer SurvivabilityHuy Q. Pham, Jurko Guba, Mousa Gawanmeh, Lisa A. Porter, Alioune Ngom. 639-644 [doi]
- A Deep Learning Model to Identify a Genomic Signature Driving Sporadic Colorectal Cancer in Young AdultsAbed Alkhateeb, Nazia Fatima, Govindaraja Atikukke, Sabeena Misra, Luis Rueda. 645 [doi]
- Auto-ASD-Network: A Technique Based on Deep Learning and Support Vector Machines for Diagnosing Autism Spectrum Disorder using fMRI DataTaban Eslami, Fahad Saeed. 646-651 [doi]
- ParBio'19 - 8th Workshop on Parallel and Cloud-based Bioinformatics and BiomedicineGiuseppe Agapito, Wes Lloyd, Mario Cannataro 0001. 652 [doi]
- Simulation of Random Network of Hodgkin and Huxley Neurons with Exponential Synaptic Conductances on an FPGA PlatformZheming Jin, Hal Finkel. 653-657 [doi]
- Towards Local Alignment of Multiple Networks: Multi-GLAlignMarianna Milano, Pietro Hiram Guzzi, Mario Cannataro 0001. 658-662 [doi]
- Challenges and Opportunities of Amazon Serverless Lambda Services in BioinformaticsRodrigo Crespo-Cepeda, Giuseppe Agapito, José Luis Vázquez-Poletti, Mario Cannataro 0001. 663-668 [doi]
- MirLibSpark: A Scalable NGS Plant MicroRNA Prediction Pipeline for Multi-Library Functional AnnotationChao-Jung Wu, Amine M. Remita, Abdoulaye Baniré Diallo. 669-674 [doi]
- Leveraging the Cloud for Intelligent Clinical Data RegistriesMarty Humphrey, Vincent Lin, Shweta Notani, Jose Mattos. 675-682 [doi]
- Leveraging Serverless Computing to Improve Performance for Sequence ComparisonXingzhi Niu, Dimitar Kumanov, Ling-Hong Hung, Wes Lloyd, Ka Yee Yeung. 683-687 [doi]
- Using GMQL-Web for Querying, Downloading and Integrating Public with Private Genomic DatasetsMarzia Settino, Anna Bernasconi 0002, Gaia Ceddia, Giuseppe Agapito, Marco Masseroli, Mario Cannataro 0001. 688-693 [doi]