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BMCBI
2008
124views more  BMCBI 2008»
13 years 7 months ago
Inferring modules of functionally interacting proteins using the Bond Energy Algorithm
Background: Non-homology based methods such as phylogenetic profiles are effective for predicting functional relationships between proteins with no considerable sequence or struct...
Ryosuke Watanabe, Enrique Morett, Edgar E. Vallejo
BMCBI
2002
137views more  BMCBI 2002»
13 years 7 months ago
ORFer - retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files
Background: Functional genomics involves the parallel experimentation with large sets of proteins. This requires management of large sets of open reading frames as a prerequisite ...
Konrad Büssow, Steve Hoffmann, Volker Sievert
BMCBI
2004
120views more  BMCBI 2004»
13 years 7 months ago
Optimal cDNA microarray design using expressed sequence tags for organisms with limited genomic information
Background: Expression microarrays are increasingly used to characterize environmental responses and hostparasite interactions for many different organisms. Probe selection for cD...
Yian A. Chen, David J. Mckillen, Shuyuan Wu, Matth...
BMCBI
2004
95views more  BMCBI 2004»
13 years 7 months ago
PCOGR: Phylogenetic COG ranking as an online tool to judge the specificity of COGs with respect to freely definable groups of or
Background: The rapidly increasing number of completely sequenced genomes led to the establishment of the COG-database which, based on sequence homologies, assigns similar protein...
Florian Meereis, Michael Kaufmann
NAR
2007
136views more  NAR 2007»
13 years 7 months ago
DBAli tools: mining the protein structure space
The DBAli tools use a comprehensive set of structural alignments in the DBAli database to leverage the structural information deposited in the Protein Data Bank (PDB). These tools...
Marc A. Martí-Renom, Ursula Pieper, Mallur ...