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BCB
2010
125views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Protein structure alignment using elastic shape analysis
In this paper we present a method for flexible protein structure alignment based on elastic shape analysis of backbones, in a manner that can incorporate different characteristics...
Wei Liu, Anuj Srivastava, Jinfeng Zhang
BCB
2010
156views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Accelerating HMMER on GPUs by implementing hybrid data and task parallelism
Many biologically motivated problems are expressed as dynamic programming recurrences and are difficult to parallelize due to the intrinsic data dependencies in their algorithms. ...
Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhl...
BCB
2010
138views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Comparative analysis of biclustering algorithms
Biclustering is a very popular method to identify hidden co-regulation patterns among genes. There are numerous biclustering algorithms designed to undertake this challenging task...
Doruk Bozdag, Ashwin S. Kumar, Ümit V. &Ccedi...
BCB
2010
213views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Markov clustering of protein interaction networks with improved balance and scalability
Markov Clustering (MCL) is a popular algorithm for clustering networks in bioinformatics such as protein-protein interaction networks and protein similarity networks. An important...
Venu Satuluri, Srinivasan Parthasarathy, Duygu Uca...
BCB
2010
127views Bioinformatics» more  BCB 2010»
12 years 11 months ago
A novel network model for molecular prognosis
Network-based genome-wide association studies (NWAS) utilize the molecular interactions between genes and functional pathways in biomarker identification. This study presents a no...
Ying-Wooi Wan, Swetha Bose, James Denvir, Nancy La...