Abstract is missing.
- A Twentieth Anniversary Tribute to PSBDarla Hewett, Michelle Whirl Carrillo, Lawrence E. Hunter, Russ B. Altman, Teri E. Klein. 1-7 [doi]
- Session IntroductionSøren Brunak, Francisco M. de la Vega, Adam A. Margolin, Benjamin J. Raphael, Gunnar Rätsch, Joshua M. Stuart. 8-9 [doi]
- Cell Index Database (CELLX): A Web Tool for Cancer Precision MedicineKeith A. Ching, Kai Wang, Zhengyan Kan, Julio Fernández, Wenyan Zhong, Jarek Kostrowicki, Tao Xie, Zhou Zhu, Jean-François Martin, Maria Koehler, Kim Arndt, Paul A. Rejto. 10-19 [doi]
- Comparing Nonparametric Bayesian Tree Priors for Clonal Reconstruction of TumorsAmit G. Deshwar, Shankar Vembu, Quaid Morris. 20-31 [doi]
- Stepwise Group Sparse Regression (SGSR): Gene-Set-Based Pharmacogenomic Predictive Models with Stepwise Selection of Functional PriorsIn Sock Jang, Rodrigo Dienstmann, Adam A. Margolin, Justin Guinney. 32-43 [doi]
- Integrative Genome-wide Analysis of the Determinants of RNA Splicing in Kidney Renal Clear Cell CarcinomaKjong-Van Lehmann, André Kahles, Cyriac Kandoth, William Lee, Nikolaus Schultz, Oliver Stegle, Gunnar Rätsch. 44-55 [doi]
- An Integrated Framework for Reporting Clinically Relevant Biomarkers from Paired Tumor/Normal Genomic and Transcriptomic Sequencing Data In Support of Clinical Trials in Personalized MedicineSara Nasser, Ahmet A. Kurdolgu, Tyler Izatt, Jessica Aldrich, Megan L. Russell, Alexis Christoforides, Waibhav Tembe, Jeffery A. Keifer, Jason J. Corneveaux, Sara A. Byron, Karen M. Forman, Clarice Zuccaro, Jonathan J. Keats, Patricia M. LoRusso, John D. Carpten, Jeffrey M. Trent, David W. Craig. 56-67 [doi]
- Characteristics of Drug Combination Therapy in Oncology by Analyzing Clinical Trial Data on Clinicaltrials.GovMenghua Wu, Marina Sirota, Atul J. Butte, Bin Chen. 68-79 [doi]
- Session IntroductionGraciela Gonzalez, Chitta Baral, Jeff Kiefer, Suengchan Kim, Jieping Ye. 80-83 [doi]
- Identifying Mutation Specific Cancer Pathways Using a Structurally Resolved Protein Interaction NetworkBillur Engin, Matan Hofree, Hannah Carter. 84-95 [doi]
- Binning Somatic Mutations Based on Biological Knowledge for Predicting Survival: An Application in Renal Cell CarcinomaDokyoon Kim, Ruowang Li, Scott M. Dudek, John R. Wallace, Marylyn D. Ritchie. 96-107 [doi]
- Topological Features in Cancer Gene Expression Data>Svetlana Lockwood, Bala Krishnamoorthy. 108-119 [doi]
- Distant Supervision for Cancer Pathway Extraction from TextHoifung Poon, Kristina Toutanova, Chris Quirk. 120-131 [doi]
- Unsupervised Feature Construction and Knowledge Extraction from Genome-Wide Assays of Breast Cancer with Denoising AutoencodersJie Tan, Matthew Ung, Chao Cheng, Casey S. Greene. 132-143 [doi]
- Automated Gene Expression Pattern Annotation in the Mouse BrainTao Yang, Xinlin Zhao, Binbin Lin, Tao Zeng, Shuiwang Ji, Jieping Ye. 144-155 [doi]
- Session IntroductionMolly Hall, Shefali S. Verma, Dennis P. Wall, Jason H. Moore, Brendan Keating, Daniel B. Campbell, Gregory Gibson, Folkert W. Asselbergs, Sarah A. Pendergrass. 156-160 [doi]
- Measures of Exposure Impact Genetic Association Studies: An Example in Vitamin K Levels and VKORC1Dana C. Crawford, Kristin Brown-Gentry, Mark J. Rieder. 161-170 [doi]
- A Bipartite Network Approach to Inferring Interactions Between Environmental Exposures and Human DiseasesChristian Darabos, Emily D. Grussing, Maria E. Cricco, Kenzie A. Clark, Jason H. Moore. 171-182 [doi]
- Variable Selection Method for the Identification of Epistatic ModelsEmily Rose Holzinger, Silke Szymczak, Abhijit Dasgupta, James D. Malley, Qing Li, Joan E. Bailey-Wilson. 195-206 [doi]
- Genome-Wide Genetic Interaction Analysis of Glaucoma Using Expert Knowledge Derived from Human Phenotype NetworksTing Hu, Christian Darabos, Maria E. Cricco, Emily Kong, Jason H. Moore. 207-218 [doi]
- Identification of Gene-Gene and Gene-Environment Interactions Within the Fibrinogen Gene Cluster for Fibrinogen Levels in Three Ethnically Diverse PopulationsJanina M. Jeff, Kristin Brown-Gentry, Dana C. Crawford. 219-230 [doi]
- Development of Exposome Correlations Globes to Map Out Environment-Wide AssociationsChirag J. Patel, Arjun K. Manrai. 231-242 [doi]
- Mitochondrial Variation and the Risk of Age-Related Macular Degeneration Across Diverse PopulationsNicole A. Restrepo, Sabrina L. Mitchell, Robert J. Goodloe, Deborah G. Murdock, Jonathan L. Haines, Dana C. Crawford. 243-254 [doi]
- iPINBPA: An Integrative Network-Based Functional Module Discovery Tool for Genome-Wide Association StudiesLili Wang, Parvin Mousavi, Sergio Baranzini. 255-266 [doi]
- Session IntroductionRobert Leaman, Benjamin M. Good, Andrew I. Su, Zhiyong Lu. 267-269 [doi]
- Reputation-Based Collaborative Network BiologyJean Binder, Stéphanie Boué, Anselmo Di Fabio, Brett Fields, William Hayes, Julia Hoeng, Jennifer Park, Manuel C. Peitsch. 270-281 [doi]
- Microtask Crowdsourcing for Disease Mention Annotation in PubMed AbstractsBenjamin M. Good, Max Nanis, Chunlei Wu, Andrew I. Su. 282-293 [doi]
- Analyzing Search Behavior of Healthcare Professionals for Drug Safety SurveillanceDavid J. Odgers, Rave Harpaz, Alison Callahan, Gregor Stiglic, Nigam H. Shah. 306-317 [doi]
- Refining Literature Curated Protein Interactions Using Expert OpinionsOznur Tastan, Yanjun Qi, Jaime G. Carbonell, Judith Klein-Seetharaman. 318-329 [doi]
- Crowdsourcing RNA Structural Alignments with an Online Computer GameJérôme Waldispühl, Arthur Kam, Paul P. Gardner. 330-341 [doi]
- Session introductionJoel T. Dudley, Jennifer Listgarten, Oliver Stegle, Steven E. Brenner, Leopold Parts. 342-346 [doi]
- KLEAT: Cleavage Site Analysis of TranscriptomesInanç Birol, Anthony Raymond, Readman Chiu, Ka Ming Nip, Shaun D. Jackman, Maayan Kreitzman, T. Roderick Docking, Catherine A. Ennis, A. Gordon Robertson, Aly Karsan. 347-358 [doi]
- Causal Inference in Biology Networks with Integrated Belief PropagationRui Chang, Jonathan R. Karr, Eric E. Schadt. 359-370 [doi]
- Machine Learning from Concept to Clinic: Reliable Detection of BRAF V600E DNA Mutations in Thyroid Nodules Using High-Dimensional RNA Expression DataJames Diggans, Su-Yeon Kim, Zhanzhi Hu, Daniel Pankratz, Mei Wong, Jessica Reynolds, Ed Tom, Moraima Pagan, Robert Monroe, Juan Rosai, Virginia A. Livolsi, Richard B. Lanman, Richard T. Kloos, Sean Walsh, Giulia C. Kennedy. 371-382 [doi]
- A Systematic Assessment of Linking Gene Expression with Genetic Variants for Prioritizing Candidate TargetsHua Fan-Minogue, Bin Chen, Weronika Sikora-Wohlfeld, Marina Sirota, Atul J. Butte. 383-394 [doi]
- Drug-induced mRNA Signatures Are Enriched for the Minority of Genes that Are Highly HeritableTianxiang Gao, Petter Brodin, Mark M. Davis, Vladimir Jojic. 395-406 [doi]
- An Integrative Pipeline for Multi-Modal Discovery of Disease RelationshipsBenjamin S. Glicksberg, Li Li, Wei-Yi Cheng, Khader Shameer, Jörg Hakenberg, Rafael Castellanos, Meng Ma, Lisong Shi, Hardik Shah, Joel T. Dudley, Rong Chen. 407-418 [doi]
- PEAX: Interactive Visual Analysis and Exploration of Complex Clinical Phenotype and Gene Expression AssociationMichael A. Hinterberg, David P. Kao, Michael R. Bristow, Lawrence E. Hunter, J. David Port, Carsten Görg. 419-430 [doi]
- T-ReCS: Stable Selection of Dynamically Formed Groups of Features with Application to Prediction of Clinical OutcomesGrace T. Huang, Ioannis Tsamardinos, Vineet Raghu, Naftali Kaminski, Panayiotis V. Benos. 431-442 [doi]
- Meta-Analysis of Differential Gene Co-Expression: Application to LupusSumit B. Makashir, Leah C. Kottyan, Matthew T. Weirauch. 443-454 [doi]
- Melancholic Depression Prediction by Identifying Representative Features in Metabolic and Microarray Profiles with Missing ValuesZhi Nie, Tao Yang, Yashu Liu, Binbin Lin, Qingyang Li, Vaibhav A. Narayan, Gayle M. Wittenberg, Jieping Ye. 455-466 [doi]
- BayClone: Bayesian Nonparametric Inference of Tumor Subclones Using NGS DataSubhajit Sengupta, Jing Wang 0006, Juhee Lee, Peter Müller 0003, Kamalakar Gulukota, Arunava Banerjee, Yuan Ji. 467-478 [doi]
- Human Evolutionary Genomics and the Search for the Genes that Made Us HumanJames M. Sikela. 479-481 [doi]
- Discovery Informatics in Biological and Biomedical Sciences: Research Challenges and OpportunitiesVasant Honavar. 482 [doi]
- Inviting the Public: The Impact on Informatics Arising from Emerging Global Health Research ParadigmsRichard Gayle, Mark E. Minie, Erik J. Nilsson. 483-487 [doi]
- Training the Next Generation of Quantitative Biologists in the Era of Big DataKristine A. Pattin, Anna C. Greene, Russ B. Altman, Kevin Bretonnel Cohen, Elizabeth Wethington, Carsten Görg, Lawrence E. Hunter, Spencer V. Muse, Predrag Radivojac, Jason H. Moore. 488-492 [doi]