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2013 IEEE Symposium on Biological Data Visualization (BioVis) (2013)
Atlanta, GA, USA
Oct. 13, 2013 to Oct. 14, 2013
ISBN: 978-1-4799-1658-0
TABLE OF CONTENTS

Title page (PDF)

pp. 1

Papers (PDF)

pp. 1-2

Preface: Message from the Paper Chairs (PDF)

G. Elisabeta Marai , University of Pittsburg, PA, USA
Kay Nieselt , University of Tubingen, Germany
pp. 1-2

Challenge session speakers: Engaging today's genomics resources (PDF)

Ting Wang , Genetics Department and Center for Genome Sciences, Washington University in St. Louis
Thomas Ferrin , Department of Pharmaceutical Chemistry and Department of Bioengineering and Therapeutic Sciences; Director, Resource for Biocomputing, Visualization and Informatics, University of California, San Francisco
pp. 1-2

invis: Exploring high-dimensional RNA sequences from in vitro selection (Abstract)

Cagatay Demiralp , Stanford University
Eric Hayden , Stanford University
Jeff Hammerbacher , Cloudera & Mt. Sinai Medical School
Jeffrey Heer , Stanford University
pp. 1-8

Large-scale multiple sequence alignment visualization through gradient vector flow analysis (Abstract)

Khoa Tan Nguyen , Scientific Visualization Group, Linköping University, Sweden
Timo Ropinski , Scientific Visualization Group, Linköping University, Sweden
pp. 9-16

COMBat: Visualizing co-occurrence of annotation terms (Abstract)

Remko B. J. van Brakel , Eindhoven University of Technology
Mark W. E. J. Fiers , Center for the Biology of Disease (VIB), Leuven
Christof Francke , HAN University of Applied Sciences, Nijmegen
Michel A. Westenberg , Eindhoven University of Technology
Huub van de Wetering , Eindhoven University of Technology
pp. 17-24

Robust detection and visualization of cytoskeletal structures in fibrillar scaffolds from 3-dimensional confocal image (Abstract)

Do Young Park , Dept. of Computer Science and Engineering The Ohio State University
Desiree Jones , Dept. of Internal Medicine/Cardiology, Davis Heart and Lung Research Institute The Ohio State University
Nicanor I. Moldovan , Dept. of Internal Medicine/Cardiology, Davis Heart and Lung Research Institute The Ohio State University
Raghu Machiraju , Dept. of Computer Science and Engineering The Ohio State University
Thierry Pecot , Dept. of Computer Science and Engineering, Comprehensive Cancer Center The Ohio State University
pp. 25-32

PresentaBALL — A powerful package for presentations and lessons in structural biology (Abstract)

Stefan Nickels , Center for Bioinformatics, Saarland University, 66041 Saarbrücken Germany
Daniel Stockel , Center for Bioinformatics, Saarland University, 66041 Saarbrücken Germany
Sabine C. Mueller , Center for Bioinformatics, Saarland University, 66041 Saarbrücken Germany
Hans-Peter Lenhof , Center for Bioinformatics, Saarland University, 66041 Saarbrücken Germany
Andreas Hildebrandt , Chair for Software-Engineering and Bioinformatics, Johannes-Gutenbera-University Mainz, 55128 Mainz, Germany
Anna Katharina Dehof , Center for Bioinformatics, Saarland University, 66041 Saarbrücken Germany
pp. 33-40

From biochemical reaction networks to 3D dynamics in the cell: The ZigCell3D modeling, simulation and visualisation framework (Abstract)

Pablo de Heras Ciechomski , ScienceVisuals Sarl Lausanne, Switzerland
Michael Klann , ETH Zurich, Switzerland
Robin Mange , ETH Zurich, Switzerland
Heinz Koeppl , ETH Zurich, Switzerland IBM Research Zurich
pp. 41-48

The Molecular Control Toolkit: Controlling 3D molecular graphics via gesture and voice (Abstract)

Kenneth Sabir , Garvan Institute of Medical Research, Australia
Christian Stolte , CSIRO Computational Informatics, Australia
Bruce Tabor , CSIRO Computational Informatics, Australia
Sean I. O'Donoghue , CSIRO Computational Informatics, Australia and Garvan Institute of Medical Research, Australia
pp. 49-56

MoClo planner: Interactive visualization for Modular Cloning bio-design (Abstract)

Orit Shaer , Wellesley College
Consuelo Valdes , Wellesley College
Sirui Liu , Wellesley College
Kara Lu , Wellesley College
Traci L. Haddock , Department of Electrical and Computer Engineering Boston University
Swapnil Bhatia , Department of Electrical and Computer Engineering Boston University
Douglas Densmore , Department of Electrical and Computer Engineering Boston University
Robert Kincaid , Agilent Technologies
pp. 57-64

VisNEST — Interactive analysis of neural activity data (Abstract)

Christian Nowke , Virtual Reality Group, RWTH Aachen University, JARA - High Performance Computing
Maximilian Schmidt , Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6), Jülich Research Center JARA - Translational Brain Medicine
Sacha J. van Albada , Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6), Jülich Research Center JARA - Translational Brain Medicine
Jochen M. Eppler , Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6), Jülich Research Center JARA - Translational Brain Medicine
Rembrandt Bakker , Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6), Jülich Research Center JARA - Translational Brain Medicine
Markus Diesrnann , Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6), Jülich Research Center JARA - Translational Brain Medicine
Bernd Hentschel , Virtual Reality Group, RWTH Aachen University, JARA - High Performance Computing
Torsten Kuhlen , Virtual Reality Group, RWTH Aachen University, JARA - High Performance Computing
pp. 65-72

neuroMAP — Interactive graph-visualization of the fruit fly's neural circuit (Abstract)

Johannes Sorger , VRVis Research Center, Vienna, Austria
Katja Buhler , VRVis Research Center, Vienna, Austria
Florian Schulze , VRVis Research Center, Vienna, Austria
Tianxiao Liu , Institute of Molecular Pathology, Vienna, Austria
Barry Dickson , Institute of Molecular Pathology, Vienna, Austria
pp. 73-80

Genome-wide detection of sRNA targets with rNAV (Abstract)

Jonathan Dubois , LABRI UMR CNRS 5800, Université Bordeaux 1, France
Amine Ghozlane , DSIMB, INSERM UMR-S 665, Université Paris 7, INTS, France
Patricia Thebault , CGFB - CBiB and LABRI UMR CNRS 5800, Université Bordeaux 2, France
Isabelle Dutour , LABRI UMR CNRS 5800, Université Bordeaux 1, France
Romain Bourqui , LABRI UMR CNRS 5800, Université Bordeaux 1, France
pp. 81-88

Leveraging wall-sized high-resolution displays for comparative genomics analyses of copy number variation (Abstract)

Roy A. Ruddle , School of Computing, University of Leeds, Leeds, UK
Waleed Fateen , Leeds Institute of Cancer Studies & Pathology, University of Leeds, Leeds, UK
Darren Treanor , Leeds Institute of Cancer Studies & Pathology, University of Leeds, Leeds, UK
Peter Sondergeld , School of Computing, University of Leeds, Leeds, UK
Phil Ouirke , Leeds Institute of Cancer Studies & Pathology, University of Leeds, Leeds, UK
pp. 89-96

Hummod browser: An exploratory visualization tool for the analysis of whole-body physiology simulation data (Abstract)

Keqin Wu , University of Maryland, Baltimore County
Jian Chen , University of Maryland, Baltimore County
William A. Pruett , University of Mississippi Medical Center
Robert L. Hester , University of Mississippi Medical Center
pp. 97-104

Visual cleaning of genotype data (Abstract)

Jessie Kennedy , Edinburgh Napier University, UK
Martin Graham , Edinburgh Napier University, UK
Trevor Paterson , The Roslin Institute, University of Edinburgh, UK
Andy Law , The Roslin Institute, University of Edinburgh, UK
pp. 105-112
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