1st IEEE Symposium on
Biological Data Visualization

23-24 October 2011 / Providence, RI @ IEEE VisWeek

BioVis 2011 Paper

Visual Exploration of Microbial Populations Sara Johansson Fernstad, Jimmy Johansson, Suzi Adams, Jane Shaw, David Taylor
Studies of the ecology of microbial populations are increasingly common within many research areas as the field of microbiomics develops rapidly. The study of the ecology in sampled microbial populations generates high dimensional data sets. Although many analysis methods are available for examination of such data, a tailored tool was required to fulfill the need of interactivity and flexibility for microbiologists. In this paper, MicrobiVis is presented. It is a tool for visual exploration and interactive analysis of microbiomic populations. MicrobiVis has been designed in close collaboration with end users. It extends previous interactive systems for explorative dimensionality reduction by including a range of domain relevant features. It contributes a flexible and explorative dimensionality reduction as well as a visual and interactive environment for examination of data subsets. By combining information visualization and methods based on analytic tasks common in microbiology as a means for gaining new and relevant insights. The utility of MicrobiVis is demonstrated through a use case describing how a microbiologist may use the system for a visual analysis of a microbial data set. Its usability and potential is indicated through positive feedback from the current end users.

BioVis 2011 Papers and Abstracts

<a href="../../papers_abstracts/papers/104.html">GenAMap: Visualization Strategies for Structured Association Mapping</a> <a href="../../papers_abstracts/papers/106.html">A Visual Analysis System for Metabolomics Data</a> <a href="../../papers_abstracts/papers/111.html">The Galaxy Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool</a> <a href="../../papers_abstracts/papers/113.html">TIALA - Time Series Alignment Analysis</a> <a href="../../papers_abstracts/papers/118.html">MDMap : A System for Data-driven Layout and Exploration of Molecular Dynamics Simulations</a> <a href="../../papers_abstracts/papers/124.html">Evaluating the VIPER pedigree visualisation: detecting inheritance inconsistencies in genotyped pedigrees.</a> <a href="../../papers_abstracts/papers/129.html">Fiber Stippling: An Illustrative Rendering for Probabilistic Diffusion Tractography</a> <a href="../../papers_abstracts/papers/130.html">Parallel Contour-Buildup Algorithm for the Molecular Surface</a> <a href="../../papers_abstracts/papers/133.html">Visualization of Anisotropic Contact Potentials within Protein Structures</a> <a href="../../papers_abstracts/papers/134.html">Visual Exploration of Microbial Populations</a> <a href="../../papers_abstracts/papers/136.html">Quick2Insight: A User-Friendly Framework for Interactive Rendering of Biological Image Volumes</a> <a href="../../papers_abstracts/papers/140.html">Visual Analysis of Next-Generation Sequencing Data to Detect Overlapping Genes in Bacterial Genomes</a> <a href="../../papers_abstracts/papers/144.html">Visualizing Virus Population Variability From Next Generation Sequencing Data</a> <a href="../../papers_abstracts/papers/148.html">Metrics for Comparing Explicit Representations of Interconnected Biological Networks</a> <a href="../../papers_abstracts/papers/149.html">RuleBender: Integrated Visualization for Biochemical Rule-Based Modeling</a> <a href="../../papers_abstracts/papers/150.html">iHAT: interactive Hierarchical Aggregation Table</a> <a href="../../papers_abstracts/papers/151.html">Semantically Steered Visual Analysis of Highly Detailed Morphometric Shape Spaces</a> <a href="../../papers_abstracts/papers/158.html">Modeling and Visualization of Receptor Clustering on the Cellular Membrane</a> <a href="../../papers_abstracts/papers/160.html">HiTSEE: A Visualization Tool for Hit Selection and Analysis in High-Throughput Screening Experiments</a> <a href="../../papers_abstracts/papers/168.html">EVEVis: A Multi-Scale Visualization System for Dense Evolutionary Data</a> <a href="../../papers_abstracts/abstracts/102.html">NGS Explorer: An Application for Visually Contextualizing and Interrogating Multivariate Omics Data</a> <a href="../../papers_abstracts/abstracts/103.html">Cell Illustrator/JS: Social Systems Biology</a> <a href="../../papers_abstracts/abstracts/104.html">Navigation and Exploration System for Stem Cell Image Data</a> <a href="../../papers_abstracts/abstracts/107.html">Seqeyes: A multi-scale interactive visualization tool for structural variations</a> <a href="../../papers_abstracts/abstracts/109.html">Analysis-Ready Meshes of Neuronal Forests</a> <a href="../../papers_abstracts/abstracts/110.html">DCE-MRI-oriented Volume Rendering for Monitoring of Crohn's Disease</a> <a href="../../papers_abstracts/abstracts/113.html">FoldSynth: A physics-based interactive visualisation platform for proteins and other molecular strands</a> <a href="../../papers_abstracts/abstracts/115.html">Toward Systems-Level Visualizations of Molecular Networks on Large-Scale, High-Resolution Displays</a> <a href="../../papers_abstracts/abstracts/116.html">3D Reconstruction and Visualization of the Developing Drosophila Wing Imaginal Disc at Cellular Resolution</a> <a href="../../papers_abstracts/abstracts/117.html">Interactive visualization of multiscale biomedical data: an integrated approach</a> <a href="../../papers_abstracts/abstracts/119.html">Reconstructing Neural Structures from Sparse User Scribbles</a> <a href="../../papers_abstracts/abstracts/120.html">Visualizing Global Correlation in Large-Scale Molecular Biological Data</a> <a href="../../papers_abstracts/abstracts/121.html">VESPA: Visual Exploration and Statistics to Promote Annotation for Prokaryotic Genomes</a> <a href="../../papers_abstracts/abstracts/122.html">Visualizing Genetic Transmission Patterns in Plant Pedigrees</a> <a href="../../papers_abstracts/abstracts/123.html">CluMa-GO: Bring Gene Ontologies and Hierarchical Clusterings Together</a> <a href="../../papers_abstracts/abstracts/124.html">Animating Cell Biology for Research and Teaching</a> <a href="../../papers_abstracts/abstracts/125.html">3D Reconstruction and Analysis of Bat Flight Maneuvers from Sparse Multiple View Video</a> <a href="../../papers_abstracts/abstracts/126.html">Visualization of experimental design & workflows in biological experiments</a> <a href="../../papers_abstracts/abstracts/131.html">Spatially Continuous Change of Abstraction in Molecular Visualization</a> <a href="../../papers_abstracts/abstracts/132.html">Fast Tracing of Microtubule Centerlines in Electron Tomograms</a> <a href="../../papers_abstracts/abstracts/133.html">Light Microscopy-Based Reconstruction and Interactive Structural Analysis of Cortical Neural Networks</a> <a href="../../papers_abstracts/abstracts/134.html">KnomePathways: A Tool to View and Query Gene Interaction Networks in Individual Human Genomes</a> <a href="../../papers_abstracts/abstracts/135.html">G-nome Surfer: a Tabletop Interface for Collaborative Exploration of Genomic Visualization</a> <a href="../../papers_abstracts/abstracts/136.html">FvNano: A Virtual Laboratory to Manipulate Molecular Systems</a> <a href="../../papers_abstracts/abstracts/137.html">Lessons Learned from Tool Development for Animal Movement Analysis</a> <a href="../../papers_abstracts/abstracts/140.html">InBox: In-situ Multiple-Selection and Multiple-View Exploration of Diffusion tensor MRI Visualization</a>