15th Annual Rocky Mountain Bioinformatics Conference

DETAILED AGENDA


Go directly to: Friday - December 8 | Saturday - December 9
WEDNESDAY – December 6, 2017
START TIME END TIME SESSION TYPE
04:00 pm 06:00 pm REGISTRATION
 
THURSDAY – December 7, 2017
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
Maricel Kann, Ph.D.
Associate Professor
Department of Biological Sciences
University of Maryland, USA

A Protein-Domain Approach for the Analysis of Disease Mutations
09:45 am 09:55 am OP 01
Comparative Genomics and Alliance for Genome Resources

Presenting Author: Judith Blake, Jackson Laboratory
09:55 am 10:05 am OP 02
RSEQREP: RNA-Seq Reports, an open-source cloud-enabled framework for reproducible RNA-Seq data processing, analysis, and result reporting

Presenting Author: Travis Jensen, The Emmes Corporation
10:05 am 10:15 am OP 03
Confounds in biomedical natural language processing


Presenting Author:
Kevin Cohen, University of Colorado School of Medicine
10:15 am 10:25 am OP 04
Integrated molecular and clinical analysis for understanding human disease relationships

Presenting Author: Winston Haynes, Stanford University
10:25 am 10:45 am Break
10:45 am 11:15 am Keynote 2
Patrick Zhao, Ph.D.
Professor and Head
Computational Biology and Bioinformatics Lab
Noble Research Institute, LLC
Oklahoma, USA

Genotype-phenotype Association Discovery through Accurately Dissecting Phenotype-associated Genetic Causal Effects
11:15 am 11:25 am OP 05
Continuous integration for ensuring interoperability of the Open Biomedical Ontologies

Presenting Author: William Baumgartner, University of Colorado Anschutz Medical Campus
11:25 am 11:35 am OP 06
Classification of glioblastoma subtypes by integrating genomic and histopathological image features with probabilistic graphical models

Presenting Author:
Dimitris Manatakis, University of Pittsburgh
11:35 am 11:45 am OP 07
MPEG-G the emerging standard for genomic data compression

Presenting Author: Mikel Hernaez, University of Illinois
11:45 am 11:55 am OP 08
Physical aspects of the -helix and their implications towards amyloidal tendency

Presenting Author: Simcha Srebnik, Technion - Israel Institute of Technology
12:00 pm 04:00 pm -->Ski Break
04:00 pm 04:30 pm Keynote 3
Krista Meyer, Ph.D.
Director of Proteomic Analysis, R&D
Biodesix: Making Medicine Personal®
Colorado, USA

Development of Clinically Relevant Tests from Human Serum Samples: A Look at the Circulating Proteome
04:30 pm 04:40 pm OP 09
A Novel Systematic Analysis of ALDH Isozyme Specificity in Head and Neck Squamous Cell Carcinoma

Presenting Author: Brian Jackson, University of Colorado Anschutz Medical Campus
04:40 pm 04:50 pm OP 10
Building a Systems-level model of the immune response to Salmonella infection

Presenting Author: Marta Andres-Terre, Stanford University
04:50 pm 05:00 pm OP 11
Development of a statistical model of the genetics of maternal-fetal dyads in neonatal abstinence syndrome

Presenting Author: James Denvir, Marshall University
05:00 pm 05:10 pm OP 12
Tracing the Innate Genetic Evolution and Spatial Heterogeneity in Treatment Naïve Lung Cancer Lesions

Presenting Author: Jihye Kim, University of Colorado Anschutz Medical Campus
05:10 pm 05:30 pm Break
05:30 pm 05:40 pm OP 13
Locating sites of ribonucleotide incorporation in RNase H2-deficient cells

Presenting Author: Alli Gombolay, Georgia Institute of Technology
05:40 pm 05:50 pm OP 14
Increasing flexibility of Laboratory Information Management System (LIMS) through extension of relational database model with NoSQL

Presenting Author: Marcin J. Domagalski, University of Virginia
05:50 pm 06:00 pm OP 15
Correcting for non-random fragmentation allows for more accurate estimation of relative abundance in NGS metagenomic data.

Presenting Author: Elmar Pruesse, University of Colorado Denver
06:30 pm 09:30 pm Dinner - Il Poggio
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FRIDAY – December 8, 2017
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
Bjoern Peters, Ph.D.
Associate Professor
La Jolla Institute for Allergy & Immunology
California, USA

Open Biomedical Ontology Services
09:45 am 09:55 am OP 16
Assembly-free metagenomic analyses on distributed computational platforms

Presenting Author: Anna Paola Carrieri, IBM Research UK
09:55 am 10:05 am OP 17
Discovering the Contribution of the Gut Microbiome to the Plasma Metabolome

Presenting Author: Michael Shaffer, University of Colorado Denver Anschutz Medical Campus
10:05 am 10:15 am OP 18
Statistical Integration and Feature Selection for Candidate Biomarker Discovery

Presenting Author: Bobbie-Jo Webb-Robertson, Pacific Northwest National Laboratory
10:15 am 10:25 am OP 19
DySE – Dynamic System Explanation Framework, Application in Cancer

Presenting Author:
Natasa Miskov-Zivanov, University of Pittsburgh
10:25 am 10:45 am Break
10:45 am 11:15 am Keynote 5
Renée Deehan Kenney, Ph.D.
Head of Biology and Bioinformatics
PatientsLikeMe
Massachusetts, USA

Digital Me: Developing a Learning Health System through the Integration of Longitudinal Patient-generated Health Data with Multi-omic Molecular Measurements
11:15 am 11:25 am OP 20
A systems biology approach using cell-to-cell heterogeneity to map cell fate decisions in developmental processes

Presenting Author: Jens Preussner, Max Planck Institute for Heart and Lung Research
11:25 am 11:35 am OP 21
Enabling Deep Learning on Structural Biological Data

Presenting Author: Tom Corcoran, Lawrence Berkeley National Laboratory
11:35 am 11:45 am OP 22
Unsupervised discovery of phenotype specific heterogeneous gene networks

Presenting Author: Jenny Shi, University of Colorado AMC
11:45 am 11:55 am OP 23
Detecting mutated driver genes from pan-cancer data through a novel matrix factorization based model by learning similarities from pairwise constraints

Presenting Author: Jianing Xi, University of Science and Technology of China
12:00 pm 04:00 pm -->Ski Break
04:00 pm 04:30 pm Keynote 6
Tom Hraha, Ph,D.
Research Scientist, Bioinformatics
SomaLogic, Inc.
Boulder, Colorado, USA

SOMAscan™ Proteomic Insights Contrasted with Genetic Insights in Down Syndrome Patients: The Need for a Molecular Phenotype Approach

04:30 pm 04:40 pm OP 24
Automated Biomedical Text Classification with Research Domain Criteria

Presenting Author: Mohammad Anani, Montana State University
04:40 pm 04:50 pm OP 25
Unsupervised methods for lexical ambiguity in concept normalization

Presenting Author: Negacy Hailu, University of Colorado
04:50 pm 05:00 pm OP 26
A Comparison of Viral Identification Techniques in Longitudinal Metagenomic Datasets

Presenting Author: Cody Glickman, University of Colorado Anschutz Medical Campus
05:00 pm 05:10 pm OP 27
A Pilot Systematic Genomic Comparison of Recurrence Risks of Hepatitis B Virus-associated Hepatocellular Carcinoma with low and high degree of liver fibrosis

Presenting Author: Seungyeul Yoo, Icahn School of Medicine at Mount Sinai
05:10 pm 05:30 pm Break
05:30 pm 06:00 pm OP 28
Identifying and Annotating Uninvestigated Preeclampsia-Related Genes Using Linked Open Biomedical Data

Presenting Author: Tiffany Callahan, University of Colorado Denver Anschutz Medical Campus
    OP 29
Novel Approaches for Accuracy Assessment of 3D Chromatin Configuration Reconstructions

Presenting Author: Mark Segal, University of California San Francisco
    OP 30
Codon Aversion: An alignment-free method to recover phylogenies

Presenting Author: Justin Miller, Brigham Young University
06:30 pm 08:30 pm Poster Session
Poster abstracts
Poster list
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SATURDAY – December 9, 2017
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
Olivier Lichtarge, Ph.D.
Stephen Wilson
Baylor College of Medicine
Texas, USA

MeTeOR: a Literature Network for Hypothesis Generation and Precision Medicine
09:30 am 09:40 am OP 31
Isoform level differential network analysis: A proffer alternative for identifying cancer markers

Presenting Author: Manoj Kandpal, Northwestern University
09:40 am 09:50 am OP 32
Non-B DNA Predictor: A Web Application for Identifying Potential Intramolecular Non-B DNAs

Presenting Author: Hannah Ajoge, Western University
09:50 am 10:00 am OP 33
IMPACT Web Portal: An Oncology Database Integrating Molecular Profiles with Actionable Therapeutics from Next Generation Sequencing Data

Presenting Author: Jennifer Hintzsche, University of Colorado Anschutz Medical Campus
10:00 am 10:10 am OP 34
Exploring Frequented Regions in Pan-Genomic Graphs

Presenting Author: Brendan Mumey, Montana State University
10:10 am 10:20 am OP 35
TOBIAS - Transcription factor Occupancy prediction By Investigation of ATAC-seq Signals

Presenting Author: Mario Looso, Max Planck Institute for Heart and Lung Research
10:20 am 10:40 am Break
10:40 am 10:50 am OP 36
Integrating Protein Localization Information in Signaling Pathway Reconstructions

Presenting Author: Anna Ritz, Reed College
10:50 am 11:00 am OP 37
Reducing the footprint of mass spectrometry data

Presenting Author: Idoia Ochoa, University of Illinois at Urbana-Champaign
11:00 am 11:10 am OP 38
Meeting today's challenging computational biology demands by integrating a focused IT team into the research process

Presenting Author: Dan Timmons, University of Colorado Boulder/BioFrontiers Institute
11:10 am 11:20 am OP 39
Predicting Adverse Events Associated with Kinase Inhibitors from Clinical Drug Trials.

Presenting Author: Ilyssa Summer, University of Colorado Anschutz Medical Campus
11:20 am 11:30 am OP 40
Characterization of the mechanism of drug-drug interactions from PubMed

Presenting Author: Feng Cheng, University of South Florida
11:30 am 12:00 pm Keynote 8
Kirk E. Jordan, Ph.D.
IBM Distinguished Engineer
Data Centric Solutions
IBM T.J. Watson Research & Chief Science Officer
IBM Research UK


Data Centric Systems: Algorithm Exploitation & Evolving Cognitive Examples
12:00 pm 12:15 pm Closing Raffle and Awards

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