2,516 research outputs found
RNA secondary structure prediction using large margin methods
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
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
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
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
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
A massive Aharony-Bergman-Jafferis-Maldacena (ABJM) model in
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 2008 Toronto
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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