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» The Inference Based on Molecular Computing
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RECOMB
2003
Springer
15 years 11 months ago
Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals
We propose a framework for modeling sequence motifs based on the maximum entropy principle (MEP). We recommend approximating short sequence motif distributions with the maximum en...
Gene W. Yeo, Christopher B. Burge
ICPP
2009
IEEE
15 years 6 months ago
Integrated Performance Views in Charm++: Projections Meets TAU
Abstract—The Charm++ parallel programming system provides a modular performance interface that can be used to extend its performance measurement and analysis capabilities. The in...
Scott Biersdorff, Chee Wai Lee, Allen D. Malony, L...
IPPS
2008
IEEE
15 years 5 months ago
Parallel mining of closed quasi-cliques
Graph structure can model the relationships among a set of objects. Mining quasi-clique patterns from large dense graph data makes sense with respect to both statistic and applica...
Yuzhou Zhang, Jianyong Wang, Zhiping Zeng, Lizhu Z...
AINA
2006
IEEE
15 years 5 months ago
Partitioned optimization algorithms for multiple sequence alignment
Multiple sequence alignment is an important and difficult problem in molecular biology and bioinformatics. In this paper, we propose a partitioning approach that significantly impr...
Yixin Chen, Yi Pan, Juan Chen, Wei Liu, Ling Chen
GG
2004
Springer
15 years 4 months ago
Analysis of Metabolic Pathways by Graph Transformation
Biochemical pathways, such as metabolic, regulatory, and signal transduction pathways, constitute complex networks of functional and physical interactions between molecular species...
Francesc Rosselló, Gabriel Valiente