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BMCBI
2006
114views more  BMCBI 2006»
14 years 10 months ago
A high level interface to SCOP and ASTRAL implemented in Python
Background: Benchmarking algorithms in structural bioinformatics often involves the construction of datasets of proteins with given sequence and structural properties. The SCOP da...
James A. Casbon, Gavin E. Crooks, Mansoor A. S. Sa...
BMCBI
2007
198views more  BMCBI 2007»
14 years 10 months ago
Correlation analysis reveals the emergence of coherence in the gene expression dynamics following system perturbation
Time course gene expression experiments are a popular means to infer co-expression. Many methods have been proposed to cluster genes or to build networks based on similarity measu...
Nicola Neretti, Daniel Remondini, Marc Tatar, John...
NAR
2006
188views more  NAR 2006»
14 years 10 months ago
BiologicalNetworks: visualization and analysis tool for systems biology
Systemslevelinvestigationofgenomicscaleinformation requires the development of truly integrated databases dealing with heterogeneous data, which can be queried for simple properti...
Michael Baitaluk, Mayya Sedova, Animesh Ray, Amarn...
ICDM
2006
IEEE
161views Data Mining» more  ICDM 2006»
15 years 4 months ago
Hierarchical Density Shaving: A clustering and visualization framework for large biological datasets
In many clustering applications for bioinformatics, only part of the data clusters into one or more groups while the rest needs to be pruned. For such situations, we present Hiera...
Gunjan Gupta, Alexander Liu, Joydeep Ghosh
CPM
2006
Springer
175views Combinatorics» more  CPM 2006»
15 years 1 months ago
On-Line Linear-Time Construction of Word Suffix Trees
Abstract. Suffix trees are the key data structure for text string matching, and are used in wide application areas such as bioinformatics and data compression. Sparse suffix trees ...
Shunsuke Inenaga, Masayuki Takeda