Go directly to: Friday - December 7 | Saturday - December 8 |
WEDNESDAY – December 5, 2018 |
START TIME |
END TIME |
SESSION TYPE |
04:00 pm |
06:00 pm |
REGISTRATION |
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THURSDAY – December 6, 2018 |
START TIME |
END TIME |
SESSION TYPE |
08:00 am |
06:00 pm |
Registration |
08:00 am |
09:00 am |
Breakfast |
09:00 am |
09:45 am |
Keynote 1 ZHIYONG LU, Ph.D. Deputy Director for Literature Search National Center for Biotechnology Information (NCBI) Senior Investigator, NCBI/NLM/NIH
Machine Learning in Biomedicine: from PubMed Search to Autonomous Disease Diagnosis
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09:45 am |
09:55 am |
OP01 Proteomics of natural bacterial isolates powered by deep learning-based de novo identification Presenting Author: Samuel Payne, Brigham Young University |
09:55 am |
10:05 am |
OP02 A platform for community-scale transcriptome-wide association studies
Presenting Author: YoSon Park, Perelman School of Medicine University of Pennsylvania |
10:05 am |
10:15 am |
OP03 Harmonizing and Analyzing Clinical Trials Data in the AHA Precision Medicine Platform
Presenting Author: Carsten Goerg, University of Colorado |
10:15 am |
10:25 am |
OP04 anexVis: visual analytics framework for analysis of RNA expression
Presenting Author: Diem-Trang Tran, University of Utah |
10:25 am |
10:45 am |
Break |
10:45 am |
11:15 am |
Keynote 2 AARON VON HOOSER, PhD Principal Scientist Computational Biology PatientsLikeMe, Inc.
Building a Learning System that Helps Individuals to Thrive by Connecting Their Experiences and Goals with Molecular Measures of Health |
11:15 am |
11:25 am |
OP05 The characterization of different cell types using the Benford law
Presenting Author: Sne Morag, Ariel University |
11:25 am |
11:35 am |
OP06 Use of metadata and Bag-of-words to map measurements across observational study data
Presenting Author: Laura Stevens, University of Colorado Anschutz Medical Campus |
11:35 am |
11:45 am |
OP07 ExtRamp: A novel algorithm for extracting the ramp sequence based on the tRNA adaptation index or relative codon adaptiveness Presenting Author: Justin Miller, Brigham Young University |
11:45 am |
11:55 am |
OP08 Using machine learning algorithms for classification of medulloblastoma subgroups based on gene expression data
Presenting Author: Sivan Gershanov, Ariel University |
12:00 pm |
04:00 pm |
-->Ski Break |
04:00 pm |
04:30 pm |
Keynote 3 JOSLYNN S. LEE, Ph.D. Science Education Fellow Howard Hughes Medical Institute
Training and Engaging URM Undergraduate Students in Genomics Research Through a Place-based Microbiome Research Project |
04:30 pm |
04:40 pm |
OP09 A human disease network from gene-publication relationships on PubMed
Presenting Author: Edward Lau, Stanford University |
04:40 pm |
04:50 pm |
OP10 Transcriptome analysis of cancer adjacent normal tissues reveal genes co-expressed with LINE elements
Presenting Author: Mira Han, University of Nevada Las Vegas |
04:50 pm |
05:00 pm |
OP11 Highly Accurate Computational Characterization of Protein Kinase Family-specific Phosphorylation Sites Presenting Author: Chen Li, ETH Zürich |
05:00 pm |
05:10 pm |
OP12 ORCHID: a method for detecting short-range chromatin interactions in high-resolution 5C and Hi-C datasets
Presenting Author: Fei Ji, Massachusetts General Hospital |
05:10 pm |
05:30 pm |
Break |
05:30 pm |
05:40 pm |
OP13 Using Adversarial Deep Neural Networks to Remove Nonlinear Batch Effects from Expression Data
Presenting Author: Jonathan Dayton, Brigham Young University |
05:40 pm |
05:50 pm |
OP14 Med2Mech: Neural-Symbolic Representation of Molecular Mechanisms Underlying Pediatric Disease
Presenting Author: Tiffany Callahan, University of Colorado Anschutz Medical Campus |
05:50 pm |
06:00 pm |
OP15 A Machine Learning Classifier for Assigning Individual Patients with Systemic Sclerosis to Intrinsic Molecular Subsets
Presenting Author: Jennifer Franks, Geisel School of Medicine at Dartmouth |
06:30 pm |
09:30 pm |
Dinner - Il Poggio |
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FRIDAY – December 7, 2018 |
START TIME |
END TIME |
SESSION TYPE |
08:00 am |
06:00 pm |
Registration |
08:00 am |
09:00 am |
Breakfast |
09:00 am |
09:45 am |
Keynote 4 DEBORAH L. MCGUINNESS, PhD Tetherless World Senior Constellation Chair Professor of Computer Science and Cognitive Science Rensselaer Polytechnic Institute
Semantic Data Resources Enabling Science: Building, Using, and Maintaining Ontology-Enabled Biology Data Resources |
09:45 am |
09:55 am |
OP16 A Data Quality Testing Tool for Cross-institutional OMOP Electronic Health Record Data Repositories
Presenting Author: Timothy Bergquist, University of Washington |
09:55 am |
10:05 am |
OP17 Comparative Analysis of Germline Microsatellites in the 1,000 Genomes Project
Presenting Author: Nicholas Kinney, Virginia College of Osteopathic Medicine |
10:05 am |
10:15 am |
OP18 Unbiased Pathway Detection Expands Cancer Pathways Presenting Author: Chih-Hsu Lin, Baylor College of Medicine |
10:15 am |
10:25 am |
OP19 A systems biology approach to define essential kinases in small cell lung cancer
Presenting Author: Jihye Kim, University of Colorado Anschutz Medical Campus |
10:25 am |
10:45 am |
Break |
10:45 am |
11:15 am |
Keynote 5 DAVID ASTLING, PhD Scientist, Bioinformatics SomaLogic Inc.
Beyond Genomics: Deriving Actionable Health Insights from the Human Proteome |
11:15 am |
11:25 am |
OP20 Clustering of Protein Conformations using Parallelized Dimensionality Reduction
Presenting Author: Arpita Joshi, University of Massachusetts, Boston |
11:25 am |
11:35 am |
OP21 PredHPI: an integrated web-server platform for the prediction and visualization of host-pathogen interactions
Presenting Author: Rakesh Kaundal, Utah State University |
11:35 am |
11:45 am |
OP22 Searching for translatable alternative splice isoforms in the human proteome
Presenting Author: Maggie Pui Yu Lam, University of Colorado Anschutz Medical Campus |
11:45 am |
11:55 am |
OP23 Text Mining Novel Disease- and Drug-Specific Pathways Presenting Author: Minh Pham, Baylor College of Medicine |
12:00 pm |
04:00 pm |
-->Ski Break |
04:00 pm |
04:30 pm |
Keynote 6 NICOLE A. VASILEVSKY, Ph.D. Research Assistant Professor Department of Medical Informatics and Clinical Epidemiology (DMICE) Oregon Health & Science University
LOINC2HPO: Improving Translational Informatics by Standardizing EHR Phenotypic Data Using the Human Phenotype Ontology |
04:30 pm |
04:40 pm |
OP24 Optimizing nontuberculous mycobacteria (NTM) de novo genome assemblies for application in clinical case studies
Presenting Author: Sara Kammlade, National Jewish Health |
04:40 pm |
04:50 pm |
OP25 REAL-neo, a comprehensive neoantigen prediction and prioritization pipeline using tumor sequencing data
Presenting Author: Yesesri Cherukuri, Mayo Clinic |
04:50 pm |
05:00 pm |
OP26 Measuring chromosome conformation
Presenting Author: Brian Ross, University of Colorado Anschutz Medical Campus |
05:00 pm |
05:10 pm |
OP27 Modeling the Structure of BioGRID PPI Networks Presenting Author: Sridevi Maharaj, University of California-Irvine |
05:10 pm |
05:30 pm |
Break |
05:30 pm |
05:40 pm |
OP28 Addressing the compositional data problem in sequencing with a novel, robust normalization method
Presenting Author: James St. Pierre, University of Toronto |
05:40 pm |
05:50 pm |
OP29 A Case Study on the Effects of Noisy, Long-read Correction Approaches on Assembly Contiguity
Presenting Author: Brandon Pickett, Brigham Young University |
05:50 pm |
06:00 pm |
OP30 Integrative analysis of transcriptomics and proteomics to detect novel protein isoforms from alternatively spliced transcripts induced by SF3B1 spliceosomal mutations
Presenting Author: Kelsey Nassar, University of Colorado Anschutz Medical Campus |
06:30 pm |
08:30 pm |
Poster Session |
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SATURDAY – December 8, 2018 |
START TIME |
END TIME |
SESSION TYPE |
08:00 am |
11:00 am |
Registration |
08:00 am |
09:00 am |
Breakfast |
09:00 am |
09:30 am |
Keynote 7 BENJAMIN M. GOOD, PhD Consultant Lawerence Berkeley National Labs Integrating Pathway Databases with Gene Ontology Causal Activity Models |
09:30 am |
09:40 am |
OP31 Exploring the Fabric of Breast Cancer Using Gene Sets Presenting Author: Judith Blake, The Jackson Laboratory |
09:40 am |
09:50 am |
OP32 Measuring and Protecting the Sensitive Linking Information Leakage Across Epigenetic and Transcriptomics Datasets Through Genotype and Assay Prediction
Presenting Author: Arif Harmanci, University of Texas Health Science Center |
09:50 am |
10:00 am |
OP33 Education, Networking and Building Next Generation Prototypes -- Hackathons and Analyzeathons for Bioinformaticians, Biomedical Informaticians and Computational Biologists!
Presenting Author: Ben Busby, NCBI |
10:00 am |
10:10 am |
OP34 Alternative Splicing of Single Cells in Squamous Cell Lung Cancer Premalignancy
Presenting Author: Hyunmin Kim, University of Colorado Anschutz Medical Campus |
10:10 am |
10:20 am |
OP35 Inferring trade-offs in protein folding networks Presenting Author: Sebastian Pechmann, Université de Montréal |
10:20 am |
10:40 am |
Break |
10:40 am |
10:50 am |
OP36 Fully Bayesian model for non-random missing data in qPCR
Presenting Author: Valeriia Sherina, University of Rochester Medical Center |
10:50 am |
11:00 am |
OP37 Homologous Inter-Domain Segments in Protein Families
Presenting Author: Dylan Barth, University of Nevada Las Vegas |
11:00 am |
11:10 am |
OP38 Integrating extracted relations into existing knowledge bases
Presenting Author: Harrison Pielke-Lombardo, University of Colorado |
11:10 am |
11:20 am |
OP39 The Use of Scientific Ignorance to Drive Literature-Based Discovery in Prenatal Nutrition Across Disciplinary Boundaries Presenting Author: Mayla Boguslav, University of Colorado Anschutz Medical Campus |
11:20 am |
11:30 am |
OP40 Governance Innovations for Promoting Cross-institutional Electronic Health Data Sharing
Presenting Author: Kari A. Stephens, University of Washington |
11:30 am |
12:00 pm |
Keynote 8 KIRK E. JORDAN, PhD IBM Distinguished Engineer Data Centric Solutions IBM T.J. Watson Research & Chief Science Officer
Algorithm Exploitation & Evolving AI/Cognitive Examples on IBM’s Data Centric Systems |
12:00 pm |
12:15 pm |
Closing Raffle and Awards |