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» OLAP on sequence data
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136
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BMCBI
2007
138views more  BMCBI 2007»
15 years 5 months ago
Fast computation of distance estimators
Background: Some distance methods are among the most commonly used methods for reconstructing phylogenetic trees from sequence data. The input to a distance method is a distance m...
Isaac Elias, Jens Lagergren
145
Voted
BMCBI
2006
102views more  BMCBI 2006»
15 years 5 months ago
UVPAR: fast detection of functional shifts in duplicate genes
Background: The imprint of natural selection on gene sequences is often difficult to detect. A plethora of methods have been devised to detect genetic changes due to selective pro...
Vicente Arnau, Miguel Gallach, J. Ignasi Lucas, Ig...
147
Voted
BMCBI
2006
114views more  BMCBI 2006»
15 years 5 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...
159
Voted
BMCBI
2005
93views more  BMCBI 2005»
15 years 5 months ago
SPdb - a signal peptide database
Background: The signal peptide plays an important role in protein targeting and protein translocation in both prokaryotic and eukaryotic cells. This transient, short peptide seque...
Khar Heng Choo, Tin Wee Tan, Shoba Ranganathan
BMCBI
2011
14 years 8 months ago
Structator: fast index-based search for RNA sequence-structure patterns
Background: The secondary structure of RNA molecules is intimately related to their function and often more conserved than the sequence. Hence, the important task of searching dat...
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebas...