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BMCBI
2010
142views more  BMCBI 2010»
13 years 7 months ago
Discover Protein Complexes in Protein-Protein Interaction Networks Using Parametric Local Modularity
Background: Recent advances in proteomic technologies have enabled us to create detailed protein-protein interaction maps in multiple species and in both normal and diseased cells...
Jongkwang Kim, Kai Tan
BMCBI
2008
116views more  BMCBI 2008»
13 years 7 months ago
IgTM: An algorithm to predict transmembrane domains and topology in proteins
Background: Due to their role of receptors or transporters, membrane proteins play a key role in many important biological functions. In our work we used Grammatical Inference (GI...
Piedachu Peris, Damián López, Marcel...
BMCBI
2007
233views more  BMCBI 2007»
13 years 7 months ago
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
Isaac T. S. Li, Warren Shum, Kevin Truong
BMCBI
2008
163views more  BMCBI 2008»
13 years 7 months ago
The Annotation, Mapping, Expression and Network (AMEN) suite of tools for molecular systems biology
Background: High-throughput genome biological experiments yield large and multifaceted datasets that require flexible and user-friendly analysis tools to facilitate their interpre...
Frédéric Chalmel, Michael Primig
CSDA
2006
103views more  CSDA 2006»
13 years 7 months ago
LASS: a tool for the local analysis of self-similarity
The Hurst parameter H characterizes the degree of long-range dependence (and asymptotic selfsimilarity) in stationary time series. Many methods have been developed for the estimat...
Stilian Stoev, Murad S. Taqqu, Cheolwoo Park, Geor...