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Biological Data Visualization (BioVis), 2011 IEEE Symposium on

Date 23-24 Oct. 2011

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Displaying Results 1 - 25 of 36
  • [Title page]

    Publication Year: 2011 , Page(s): i
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  • [Copyright notice]

    Publication Year: 2011 , Page(s): ii
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  • Contents

    Publication Year: 2011 , Page(s): iii - iv
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  • Supporting organizations

    Publication Year: 2011 , Page(s): v
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  • Preface

    Publication Year: 2011 , Page(s): vi - vii
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  • BioVis Symposium Committee

    Publication Year: 2011 , Page(s): viii
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  • IEEE Visualization and Graphics Technical Committee (VGTC)

    Publication Year: 2011 , Page(s): ix
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  • IEEE Technical Committee on Computational Life Sciences (TCCLS)

    Publication Year: 2011 , Page(s): x
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  • The International Society for Computational Biology (ISCB)

    Publication Year: 2011 , Page(s): xi
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  • ACM Special Interest Group on Bioinformatics, Computational Biology, and Biomedical Informatics (SIGBioinformatics)

    Publication Year: 2011 , Page(s): xii
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  • Keynote address: Translating the cancer genomes

    Publication Year: 2011 , Page(s): xiii
    Request Permissions | Click to expandAbstract | PDF file iconPDF (46 KB)  

    Summary form only given. Cancer is the phenotypic endpoint of myriad genetic and epigenetic aberrations that collectivey commandeer key cancer-relevant pathways. Comprehensive characterization of the cancer genome holds enormous potential to (i) provide penetrating insight into the genetic bases of cancer, (ii) identify promising candidate therapeutic targets and diagnostic biomarkers, and (iii) i... View full abstract»

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  • Primer session: Sense-making in molecular biology

    Publication Year: 2011 , Page(s): xiv
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  • Challenges session

    Publication Year: 2011 , Page(s): xv
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  • BioVis contest

    Publication Year: 2011 , Page(s): xvi
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  • Quick2Insight: A user-friendly framework for interactive rendering of biological image volumes

    Publication Year: 2011 , Page(s): 1 - 8
    Cited by:  Papers (3)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (1211 KB) |  | HTML iconHTML  

    This paper presents a new framework for simple, interactive volume exploration of biological datasets. We accomplish this by automatically creating dataset-specific transfer functions and utilizing them during direct volume rendering. The proposed method employs a K-Means++ clustering algorithm to classify a two-dimensional histogram created from the input volume. The classification process utiliz... View full abstract»

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  • Modeling and visualization of receptor clustering on the cellular membrane

    Publication Year: 2011 , Page(s): 9 - 15
    Cited by:  Papers (2)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (818 KB) |  | HTML iconHTML  

    In cell biology, apopotosis is a very important cellular process. Apopotosis, or programmed cell death, allows an organism to remove damaged or unneeded cells in a structured manner in contrast to necrosis. Ligands bind to the death receptors located on the cellular membrane forming ligand-receptor clusters. In this paper, we develop a novel mathematical model describing the stochastic process of ... View full abstract»

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  • Parallel Contour-Buildup algorithm for the molecular surface

    Publication Year: 2011 , Page(s): 17 - 22
    Cited by:  Papers (5)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (2138 KB) |  | HTML iconHTML  

    Molecular Dynamics simulations are an essential tool for many applications. The simulation of large molecules - like proteins - over long trajectories is of high importance e. g. for pharmaceutical, biochemical and medical research. For analyzing these data sets interactive visualization plays a crucial role as details of the interactions of molecules are often affected by the spatial relations be... View full abstract»

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  • Fiber stippling: An illustrative rendering for probabilistic diffusion tractography

    Publication Year: 2011 , Page(s): 23 - 30
    Cited by:  Papers (1)
    Multimedia
    Request Permissions | Click to expandAbstract | PDF file iconPDF (1349 KB) |  | HTML iconHTML  

    One of the most promising avenues for compiling anatomical brain connectivity data arises from diffusion magnetic resonance imaging (dMRI). dMRI provides a rather novel family of medical imaging techniques with broad application in clinical as well as basic neu-roscience as it offers an estimate of the brain's fiber structure completely non-invasively and in vivo. A convenient way to reconstruct n... View full abstract»

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  • Visualization of anisotropic contact potentials within protein structures

    Publication Year: 2011 , Page(s): 31 - 38
    Request Permissions | Click to expandAbstract | PDF file iconPDF (4274 KB) |  | HTML iconHTML  

    The use of local covalent geometry for quality assessment and refinement of protein structure models is a well-established methodology. The question arises whether information on non-covalent geometry contained within resolved structures can be harnessed to improve structure prediction. Moreover, incorporation of different combinations of priors would pave the way towards multi-body potentials. Ex... View full abstract»

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  • The Galaxy Track Browser: Transforming the genome browser from visualization tool to analysis tool

    Publication Year: 2011 , Page(s): 39 - 46
    Request Permissions | Click to expandAbstract | PDF file iconPDF (673 KB) |  | HTML iconHTML  

    The proliferation of next-generation sequencing (NGS) technologies and analysis tools present new challenges to genome browsers. These challenges include supporting very large datasets, integrating analysis tools with data visualization to help reason about and improve analyses, and sharing or publishing fully interactive visualizations. The Galaxy Track Browser (GTB) is a Web-based genome browser... View full abstract»

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  • Visual analysis of next-generation sequencing data to detect overlapping genes in bacterial genomes

    Publication Year: 2011 , Page(s): 47 - 54
    Cited by:  Papers (1)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (773 KB) |  | HTML iconHTML  

    Next generation sequencing (NGS) technologies are about to revolutionize biological research. Being able to sequence large amounts of DNA or, indirectly, RNA sequences in a short time period opens numerous new possibilities. However, analyzing the large amounts of data generated in NGS is a serious challenge, which requires novel data analysis and visualization methods to allow the biological expe... View full abstract»

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  • TIALA — Time series alignment analysis

    Publication Year: 2011 , Page(s): 55 - 61
    Cited by:  Papers (1)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (838 KB) |  | HTML iconHTML  

    The analysis of time series expression data is widely employed for investigating biological mechanisms. Microarrays are often used to generate time series for several different experimental conditions. These time series then need to be compared to each other. For a successful comparison it is necessary to perform a time series alignment because the experiments can differ in the number of time poin... View full abstract»

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  • iHAT: Interactive hierarchical aggregation table

    Publication Year: 2011 , Page(s): 63 - 69
    Request Permissions | Click to expandAbstract | PDF file iconPDF (1023 KB) |  | HTML iconHTML  

    In the search for single-nucleotide polymorphisms (SNPs), genome wide association studies have become an important technique for the identification of associations between genotype and phenotype of a diverse set of sequence-based data. In this work, we present a methodology for the visual assessment of SNPs using interactive hierarchical aggregation techniques combined with methods known from trad... View full abstract»

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  • A visual analysis system for metabolomics data

    Publication Year: 2011 , Page(s): 71 - 78
    Cited by:  Papers (1)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (594 KB) |  | HTML iconHTML  

    When analyzing metabolomics data, cancer care researchers are searching for differences between known healthy samples and unhealthy samples. By analyzing and understanding these differences, researchers hope to identify cancer biomarkers. In this work we present a novel system that enables interactive comparative visualization and analysis of metabolomics data obtained by two-dimensional gas chrom... View full abstract»

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  • Metrics for comparing explicit representations of interconnected biological networks

    Publication Year: 2011 , Page(s): 79 - 86
    Cited by:  Papers (1)
    Request Permissions | Click to expandAbstract | PDF file iconPDF (4496 KB) |  | HTML iconHTML  

    One of the major goals in biomedical image processing is accurate segmentation of networks embedded in volumetric data sets. Biological networks are composed of a meshwork of thin filaments that span large volumes of tissue. Examples of these structures include neurons and microvasculature, which can take the form of both hierarchical trees and fully connected networks, depending on the imaging mo... View full abstract»

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