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BMCBI
2008
124views more  BMCBI 2008»
13 years 5 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
BIBE
2007
IEEE
142views Bioinformatics» more  BIBE 2007»
13 years 11 months ago
An HV-SVM Classifier to Infer TF-TF Interactions Using Protein Domains and GO Annotations
—Interactions between transcription factors (TFs) are necessary for deciphering the complex mechanisms of transcription regulation in eukaryotes. In this paper, we proposed a nov...
Xiaoli Li, Jun-Xiang Lee, Bharadwaj Veeravalli, Se...
BMCBI
2010
146views more  BMCBI 2010»
13 years 5 months ago
Revealing and avoiding bias in semantic similarity scores for protein pairs
Background: Semantic similarity scores for protein pairs are widely applied in functional genomic researches for finding functional clusters of proteins, predicting protein functi...
Jing Wang 0004, Xianxiao Zhou, Jing Zhu, Chenggui ...
BMCBI
2004
174views more  BMCBI 2004»
13 years 5 months ago
Implications for domain fusion protein-protein interactions based on structural information
Background: Several in silico methods exist that were developed to predict protein interactions from the copious amount of genomic and proteomic data. One of these methods is Doma...
Jer-Ming Chia, Prasanna R. Kolatkar
BMCBI
2005
149views more  BMCBI 2005»
13 years 5 months ago
The PD-(D/E)XK superfamily revisited: identification of new members among proteins involved in DNA metabolism and functional pre
Background: The PD-(D/E)XK nuclease superfamily, initially identified in type II restriction endonucleases and later in many enzymes involved in DNA recombination and repair, is o...
Jan Kosinski, Marcin Feder, Janusz M. Bujnicki