Great Lakes Bioinformatics Conference 2017  
Workshop on Biological Data Visualization  


May 16th, 2017
10:30am – 4:30pm
Chicago, IL

Workshop Theme
Visualization is an increasingly important component in the effective analysis of large biological datasets. The goal of the Biological Data Visualization session at GLBIO’17 is to create a local interdisciplinary event for all aspects of visualization and visual analytics in biology. We intend to bring together researchers from the visualization, bioinformatics, and biology communities with the purpose of educating, inspiring, and engaging visualization researchers in problems in biological data visualization as well as educating and engaging bioinformatics and biology researchers in state-of-the-art in visualization research. The session is intended to complement rather than to compete with existing meetings on biological data visualization in the visualization and bioinformatics communities. Chicago is home to three research universities with campus hospitals, and we expect the session to attract students (both undergraduate and graduate) and research faculty from these universities (UIC, UC, and NWU), as well as practitioners from industry and medicine.
Schedule
All sessions for the Workshop on Biological Data Visualization will be held in conference room “Illinois C”


Session 1: 10:30am-12pm

Opening Remarks, G.Elisabeta Marai and Angus Forbes

Tutorial: Introduction to Biological Visualization, G.Elisabeta Marai

Recent Visualization Projects from the Electronic Visualization Laboratory, Angus Forbes + TBA


Session 2: 1:30pm-2:30pm

(P35) One Library’s Focus on Visualization Services and Guiding Principles, Marci Brandenburg

(P69) 3D Genome Browser: A Web-based Browser for Visualizing 3D Genome Organization and Long-range Chromatin Interactions, Yanli Wang, Bo Zhang, Lijun Zhang, Ting Wang, and Feng Yue

(P87) Seten: A Tool for Systematic Identification and Comparison of Processes, Phenotypes and Diseases Associated with RNA-binding Proteins from Condition-specific CLIP-seq Profiles, Gungor Budak, Rajneesh Srivastava, and Sarath Chandra Jana


Session 3: 3:00pm-4:30pm

(P40) How Trauma Affects the Fate of Pseudomonas Aeurginosa in Blood, Moamen Elmassry, Nithya Mudaliar, Rao Kottapalli, Sharmila Dissanaike, John Griswold, Michael San Francisco, Jane Colmer-Hamood, and Abdul Hamood

(P42) pHMM-tree: Phylogeny of Profile Hidden Markov Models, Yanbin Yin, Luyang Huo, Han Zhang, Xueting Huo, Yasong Yang, and Xueqiong Li

(P72) EClerize: A Customized Force-Directed Layout Algorithm for Biological Networks with EC Attributes, Hasan F. Danaci, Rengul Atalay and Volkan Atalay

(P110) Disease Gene Prioritization by Integrating and Visualizing Multiple Genomic Data, Xing Li, Timothy Nelson, and Jean-Pierre Kocher

Closing Remarks, G.Elisabeta Marai and Angus Forbes

Session Plan
This half-day event (4 hours) will feature a series of short talks by authors of submitted abstracts and invited speakers (1.5 hrs), an interactive posters and demos session (1 hr) as well as presentation-style tutorial sessions (2 x 45 minutes, online handouts only) for both visualization and bioinformatics researchers. The tutorials will introduce best practices for developing and making use of visual analytics tools for a range of biological data analysis tasks.

The main audience for this event comprises visualization and bioinformatics researchers from both academia and industry with an interest in visualization of biological data. We also encourage biologists to attend, since they, as end users of the tools and methods discussed at the session, can benefit by learning about the latest developments in this area and contribute by sharing insights into current challenges.

Call for Submissions
We are soliciting contributions in the form of oral presentations (talks or posters). We encourage participation from a broad audience and submission of research at various stages. We are accepting submissions only for oral presentation, which could include either a) 20 minute talks or b) time to present during an hour-long interactive poster+demo session. Submissions could include:

— “Research-in-progress” reports by researchers looking for feedback and/or advice on effective visualiation strategies.

— “Highlights” reports by researchers that describe either: a) visualization best practices, or b) the contributions of published journal papers that are relevant to GLBIO topics.

Relevant topics include, but are not limited to, the following:

   — Genome and sequence data, including genomic variation data
   — Multivariate -omics data (transcriptomics, proteomics, metabolomics, etc.)
   — Phylogenetic data
   — Biological networks and pathways
   — Biological ontologies
   — Macromolecular structures (e.g., protein or RNA structures)
   — Biological image data, such as microscopy data
   — Integration of image and -omics data for systems biology
   — Modeling and simulation of biological systems
   — Neurobiology and developmental biology
   — Systems and software frameworks
   — Biological workflows or collaborative processes
   — Usability of visualization by biologists
   — Biological atlases and metadata
   — Processes for interdisciplinary collaboration between biology and visualization

Please find the main submission site at: https://www.iscb.org/glbio2017-submissions.

Organizers & Session Chairs
G.Elisabeta Marai, University of Illinois at Chicago (web, email)

G.Elisabeta Marai is an Associate Professor of Computer Science at the University of Illinois at Chicago, affiliated with the Electronic Visualization Laboratory. Her research interests are in biomedical imaging, biology data visualization, and data visual analysis. Liz is a recipient of an NSF CAREER award and of multiple Outstanding Paper awards, and has co-created open-source software (RuleBender, MOSBIE) used by biologists across over 60 countries. She received her Ph.D. from Brown University in 2007. Liz is a General Co-Chair of BioVis, the ISMB SIG international symposium on biology data visualization.

Angus Forbes, University of Illinois at Chicago (web, email)

Angus Forbes is an Assistant Professor of Computer Science at the University of Illinois at Chicago, affiliated with the Electronic Visualization Laboratory. His main research interests are related to developing novel interactive data visualization techniques. He has recently created a series of visualizations for biological pathway data as part of DARPA’s Big Mechanism program. Angus received his Ph.D. in 2014 from University of California, Santa Barbara. For the last four years, he has served as a Chair of the IEEE VIS Arts Program.