2,516 research outputs found

    ISMB 2006

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    RNA secondary structure prediction using large margin methods

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    The secondary structure of RNA is essential for its biological role. Recently, Do, Woods, Batzoglou, (ISMB 2006) proposed a probabilistic approach that generalizes SCFGs using conditional maximum likelihood to estimate the model parameters. We propose an alternative approach to parameter estimation which is based on an SVM-like large margin method

    Bioinformatics Education—Perspectives and Challenges

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    This article discusses the evolution of curriculum, instructional methodologies and initiatives supporting the dissemination of bioinformatics. Building on the early applications of informatics to the field of biology, bioinformatics research entails input from the diverse disciplines of mathematics and statistics, physics and chemistry and medicine and pharmacology. Training in bioinformatics remains the oldest and most important rapid introduction approach to learning bioinformatics skills.2 page(s

    Open Science: Tools, approaches, and implications

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    The Pacific Symposium on Biocomputing is an annual meeting whose topics are determined by proposals submitted by members of the community. This document is the proposal for a session on Open Science, submitted for consideration for the PSB meeting in 2009

    Cooperative Spectrum Sensing based on the Limiting Eigenvalue Ratio Distribution in Wishart Matrices

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    Recent advances in random matrix theory have spurred the adoption of eigenvalue-based detection techniques for cooperative spectrum sensing in cognitive radio. Most of such techniques use the ratio between the largest and the smallest eigenvalues of the received signal covariance matrix to infer the presence or absence of the primary signal. The results derived so far in this field are based on asymptotical assumptions, due to the difficulties in characterizing the exact distribution of the eigenvalues ratio. By exploiting a recent result on the limiting distribution of the smallest eigenvalue in complex Wishart matrices, in this paper we derive an expression for the limiting eigenvalue ratio distribution, which turns out to be much more accurate than the previous approximations also in the non-asymptotical region. This result is then straightforwardly applied to calculate the decision threshold as a function of a target probability of false alarm. Numerical simulations show that the proposed detection rule provides a substantial performance improvement compared to the other eigenvalue-based algorithms.Comment: 7 pages, 2 figures, submitted to IEEE Communications Letter

    Educating the educators: Incorporating bioinformatics into biological science education in Malaysia

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    Bioinformatics can be defined as a fusion of computational and biological sciences. The urgency to process and analyse the deluge of data created by proteomics and genomics studies has caused bioinformatics to gain prominence and importance. However, its multidisciplinary nature has created a unique demand for specialist trained in both biology and computing. In this review, we described the components that constitute the bioinformatics field and distinctive education criteria that are required to produce individuals with bioinformatics training. This paper will also provide an introduction and overview of bioinformatics in Malaysia. The existing bioinformatics scenario in Malaysia was surveyed to gauge its advancement and to plan for future bioinformatics education strategies. For comparison, we surveyed methods and strategies used in education by other countries so that lessons can be learnt to further improve the implementation of bioinformatics in Malaysia. It is believed that accurate and sufficient steerage from the academia and industry will enable Malaysia to produce quality bioinformaticians in the future

    Construction of a Massive ABJM Theory Without Higgs Superfields

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    A massive Aharony-Bergman-Jafferis-Maldacena (ABJM) model in N=1\mathcal{N} =1 superspace is analysed by considering a Proca type mass term into the most general Faddeev-Popov action in a covariant gauge. The presence of mass term breaks the original BRST and anti-BRST invariance of the model. Further, the symmetry of the massive ABJM model is restored by extending the BRST and anti-BRST transformations. We show that the supergauge dependence of generating functional for connected diagrams occurs in presence of mass and ghost-anti-ghost condensates in the theory.Comment: 9 pages, no figur

    ISMB 2005 Conference Report

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    ISMB 2008 Toronto

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    The International Society for Computational Biology (ISCB) presents the Sixteenth International Conference on Intelligent Systems for Molecular Biology (ISMB 2008), to be held in Toronto, Canada, July 19–23, 2008. Now in the final phases of scheduling selected presentations, demonstrations, and posters, the organizers are preparing what will likely be recognized as the premier conference on computational biology in 2008. ISMB 2008 (http://www.iscb.org/ismb2008/) will follow the road paved by the ISMB/ ECCB 2007 (http://www.iscb.org/ ismbeccb2007/) in Vienna in the attempt to specifically encourage increased participation from previously under-represented disciplines of computational biology. This conference will feature the best of the computer and life sciences through a variety of core sessions running in multiple parallel tracks, along with single-tracked Keynote Presentations, posters on display throughout the duration of the conference, and an extensive commercial exposition. The first day (July 18) of the meeting is reserved for two-day Special Interest Group (SIG) and Satellite meetings, the second day (July 19) runs SIGs for the first time in parallel with Tutorials and the Student Council Symposium, and for the first time two SIGs are running in parallel with the main ISMB meeting (July 20–23)Other Research Uni
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