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ORCID19. PSB 2014: Kohala Coast, Hawaii, USA
- Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein, Marylyn D. Ritchie:
Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2014. 2014
Cancer Panomics: Computational Methods and Infrastructure for Integrative Analysis of Cancer High-Throughput "Omics" Data
- Søren Brunak, Francisco M. de la Vega, Gunnar Rätsch, Joshua M. Stuart:
Session Introduction. 1-2 - Derek Aguiar, Wendy S. W. Wong, Sorin Istrail:
Tumor Haplotype Assembly Algorithms for Cancer Genomics. 3-14 - Liviu Badea:
Extracting Significant Sample-Specific Cancer Mutations Using Their Protein Interactions. 15-26 - Elias Chaibub Neto, In Sock Jang, Stephen H. Friend, Adam A. Margolin:
The Stream Algorithm: Computationally Efficient Ridge-Regression via Bayesian Model Averaging, and Applications to Pharmacogenomic Prediction of Cancer Cell Line Sensitivity. 27-38 - Anthony Gitter, Alfredo Braunstein, Andrea Pagnani, Carlo Baldassi, Christian Borgs, Jennifer T. Chayes, Riccardo Zecchina, Ernest Fraenkel:
Sharing Information to Reconstruct Patient-Specific Pathways in Heterogeneous Diseases. 39-50 - Hao Hu, Chad D. Huff:
Detecting Statistical Interaction Between Somatic Mutational Events and Germline Variation from Next-Generation Sequence Data. 51-62 - In Sock Jang, Elias Chaibub Neto, Justin Guinney, Stephen H. Friend, Adam A. Margolin:
Systematic Assessment of Analytical Methods for Drug Sensitivity Prediction from Cancer Cell Line Data. 63-74 - Oleg Mayba, Florian Gnad, Michael Peyton, Fan Zhang, Kimberly Walter, Pan Du, Melanie A. Huntley, Zhaoshi Jiang, Jinfeng Liu, Peter M. Haverty, Robert Gentleman, Ruiqiang Li, John D. Minna, Yingrui Li, David S. Shames, Zemin Zhang:
Integrative Analysis of Two Cell Lines Derived from a Non-Small-Lung Cancer Patient - A Panomics Approach. 75-86 - Martin Renqiang Min, Salim A. Chowdhury, Yanjun Qi, Alex Stewart, Rachel Ostroff:
An Integrated Approach To Blood-Based Cancer Diagnosis And Biomarker Discovery. 87-98 - Alexander A. Morgan, Matthew D. Li, Achal S. Achrol, Purvesh Khatri, Samuel H. Cheshier:
Multiplex Meta-Analysis of Medulloblastoma Expression Studies with External Controls. 99-109
Computational Approaches to Drug Repurposing and Pharmacology
- S. Joshua Swamidass, Zhiyong Lu, Pankaj Agarwal, Atul J. Butte:
Session Introduction. 110-113 - Aurora S. Blucher, Shannon K. McWeeney:
Challenges in Secondary Analysis of High Throughput Screening Data. 114-124 - Douglas Brubaker, Analisa Difeo, Yanwen Chen, Taylor Pearl, Kaide Zhai, Gürkan Bebek, Mark R. Chance, Jill S. Barnholtz-Sloan:
Drug Intervention Response Predictions with Paradigm (DIRPP) Identifies Drug Resistant Cancer Cell Lines and Pathway Mechanisms of Resistance. 125-135 - Clara Ng, Ruth Hauptman, Yinliang Zhang, Philip E. Bourne, Lei Xie:
Anti-Infectious Drug Repurposing Using an Integrated Chemical Genomics and Structural Systems Biology Approach. 136-147 - Emmanuel R. Yera, Ann E. Cleves, Ajay N. Jain:
Prediction of Off-Target Drug Effects Through Data Fusion. 160-171 - Qian Zhu, Cui Tao, Feichen Shen, Christopher G. Chute:
Exploring the Pharmacogenomics Knowledge Base (PharmGKB) for Repositioning Breast Cancer Drugs by Leveraging Web Ontology Language (OWL) and Cheminformatics Approaches. 172-182
Detecting and Characterizing Pleiotropy: New Methods for Uncovering the Connection Between the Complexity of Genomic Architecture and Multiple Phenotypes
- Anna L. Tyler, Dana C. Crawford, Sarah A. Pendergrass:
Session introduction. 183-187 - Christian Darabos, Samantha H. Harmon, Jason H. Moore:
Using the Bipartite Human Phenotype Network to Reveal Pleiotropy and Epistasis Beyond the Gene. 188-199 - Vivek M. Philip, Anna L. Tyler, Gregory W. Carter:
Dissection of Complex Gene Expression Using the Combined Analysis of Pleiotropy and Epistasis. 200-211
Personalized Medicine: from genotypes and molecular phenotypes towards therapy
- Jennifer Listgarten, Oliver Stegle, Quaid Morris, Steven E. Brenner, Leopold Parts:
Session introduction. 247-249 - Roxana Daneshjou, Zachary Zappala, Kimberly R. Kukurba, Sean M. Boyle, Kelly E. Ormond, Teri E. Klein, Michael Snyder, Carlos D. Bustamante, Russ B. Altman, Stephen B. Montgomery:
PATH-SCAN: A Reporting Tool for Identifying Clinically Actionable Variants. 229-240 - Alicia R. Martin, Gerard Tse, Carlos D. Bustamante, Eimear E. Kenny:
Imputation-based Assessment of Next Generation Rare Exome Variant Arrays. 262-272 - Matthew Oetjens, William S. Bush, Kelly A. Birdwell, Holli H. Dilks, Erica A. Bowton, Joshua C. Denny, Russell A. Wilke, Dan M. Roden, Dana C. Crawford:
Utilization of an EMR-Biorepository to Identify the Genetic Predictors of Calcineurin-Inhibitor Toxicity in Heart Transplant Recipients. 253-264 - Ankur P. Parikh, Wei Wu, Eric P. Xing:
Robust Reverse Engineering of Dynamic Gene Networks Under Sample Size Heterogeneity. 265-276 - Anil Patwardhan, Michael Clark, Alex Morgan, Stephen A. Chervitz, Mark Pratt, Gábor T. Bartha, Gemma Chandratillake, Sarah Garcia, Nan Leng, Richard Chen:
Variant Priorization and Analysis Incorporating Problematic Regions of the Genome. 277-287 - Alessandro Perina, Pietro Lovato, Nebojsa Jojic:
Bags of Words Models of Epitope Sets: HIV Viral Load Regression with Counting Grids. 288-300 - Shandian Zhe, Zenglin Xu, Yuan Qi, Peng Yu:
Joint Association Discovery and Diagnosis of Alzheimer's Disease by Supervised Heterogeneous Multiview Learning. 300-311
Text and Data Mining for Biomedical Discovery
- Graciela Gonzalez, Kevin Bretonnel Cohen, Robert Leaman, Casey S. Greene, Nigam Shah, Maricel G. Kann, Jieping Ye:
Session introduction. 312-315 - Wyatt T. Clark, Predrag Radivojac:
Vector Quantization Kernels for the Classification of Protein Sequences and Structures. 316-327 - Christopher S. Funk, Lawrence E. Hunter, K. Bretonnel Cohen:
Combining Heterogenous Data for Prediction of Disease Related and Pharmacogenes. 328-339 - Henry Han:
A Novel Profile Biomarker Diagnosis for Mass Spectral Proteomics. 340-351 - K. E. Ravikumar, Kavishwar B. Wagholikar, Hongfang Liu:
Towards Pathway Curation Through Literature Mining - A Case Study Using PharmGKB. 352-363 - Yashu Liu, Zhi Nie, Jiayu Zhou, Michael Farnum, Vaibhav A. Narayan, Gayle M. Wittenberg, Jieping Ye:
Sparse Generalized Functional Linear Model for Predicting Remission Status of Depression Patients. 364-375 - Jennifer Malinowski, Eric Farber-Eger, Dana C. Crawford:
Development of a Data-Mining Algorithm to Identify Ages at Reproductive Milestones in Electronic Medical Records. 376-387 - Shankar Vembu, Quaid Morris:
An Efficient Algorithm to Integrate Network and Attribute Data for Gene Function Prediction. 388-399 - Marinka Zitnik, Blaz Zupan:
Matrix Factorization-Based Data Fusion for Gene Function Prediction in Baker's Yeast and Slime Mold. 400-411
Workshops
- Chao Cheng, Jason H. Moore, Casey S. Greene:
Applications of Bioinformatics to Non-Coding RNAs in the Era of Next-Generation Sequencing. 412-416 - Kristine A. Pattin, Anna C. Greene, Russ B. Altman, Lawrence E. Hunter, David A. Ross, James A. Foster, Jason H. Moore:
Building the Next Generation of Quantitative Biologists. 417-421 - Sarah A. Pendergrass, Santhosh Girirajan, Scott B. Selleck:
Uncovering the Etiology of Autism Spectrum Disorders: Genomics, Bioinformatics, Environment, Data Collection and Exploration, and Future Possibilities. 422-426
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