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BCB
2010
175views Bioinformatics» more  BCB 2010»
9 years 4 months ago
Gene set analysis using principal components
We present a new method for identifying gene sets associated with labeled samples, where the labels can be case versus control, or genotype differences. Existing approaches to thi...
Isa Kemal Pakatci, Wei Wang, Leonard McMillan
BCB
2010
213views Bioinformatics» more  BCB 2010»
9 years 4 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
166views Bioinformatics» more  BCB 2010»
9 years 4 months ago
Fast graph approaches to measure influenza transmission across geographically distributed host types
Recent advances in next generation sequencing are providing a number of large whole-genome sequence datasets stemming from globally distributed disease occurrences. This offers an...
Adrienne Breland, Karen Schlauch, Mehmet Hadi Gune...
BCB
2010
138views Bioinformatics» more  BCB 2010»
9 years 4 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
150views Bioinformatics» more  BCB 2010»
9 years 4 months ago
REAL: an efficient REad ALigner for next generation sequencing reads
Kimon Frousios, Costas S. Iliopoulos, Laurent Mouc...
BCB
2010
489views Bioinformatics» more  BCB 2010»
9 years 4 months ago
ReFHap: a reliable and fast algorithm for single individual haplotyping
Jorge Duitama, Thomas Huebsch, Gayle McEwen, Eun-K...
BCB
2010
161views Bioinformatics» more  BCB 2010»
9 years 4 months ago
Genome-wide compatible SNP intervals and their properties
Recent studies suggest that the mammalian genomes can be subdivided in segments within which there is limited haplotype diversity. Understanding the distribution and structure of ...
Jeremy W. Wang, Kyle J. Moore, Qi Zhang, Fernando ...
BCB
2010
127views Bioinformatics» more  BCB 2010»
9 years 4 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...
BCB
2010
150views Bioinformatics» more  BCB 2010»
9 years 4 months ago
Enzymatic target identification with dynamic states
As a metabolic network reaches from a state to a steady state, a subset of its fluxes gradually change. The sequence of intermediate states, called the dynamic state, shows the pa...
Bin Song, Sanjay Ranka, Tamer Kahveci
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