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NAR
2011
193views Computer Vision» more  NAR 2011»
12 years 7 months ago
AREsite: a database for the comprehensive investigation of AU-rich elements
AREsite is an online resource for the detailed investigation of AU-rich elements (ARE) in vertebrate mRNA 30 -untranslated regions (UTRs). AREs are one of the most prominent cis-a...
Andreas R. Gruber, Jörg Fallmann, Franz Krato...
BMCBI
2008
130views more  BMCBI 2008»
13 years 4 months ago
Structural descriptor database: a new tool for sequence-based functional site prediction
Background: The Structural Descriptor Database (SDDB) is a web-based tool that predicts the function of proteins and functional site positions based on the structural properties o...
Juliana S. Bernardes, Jorge H. Fernandez, Ana Tere...
BMCBI
2007
113views more  BMCBI 2007»
13 years 4 months ago
Hinge Atlas: relating protein sequence to sites of structural flexibility
Background: Relating features of protein sequences to structural hinges is important for identifying domain boundaries, understanding structure-function relationships, and designi...
Samuel Flores, Long J. Lu, Julie Yang, Nicholas Ca...
BMCBI
2010
123views more  BMCBI 2010»
12 years 11 months ago
Predicting conserved protein motifs with Sub-HMMs
Background: Profile HMMs (hidden Markov models) provide effective methods for modeling the conserved regions of protein families. A limitation of the resulting domain models is th...
Kevin Horan, Christian R. Shelton, Thomas Girke
BMCBI
2010
131views more  BMCBI 2010»
13 years 2 months ago
A two-step site and mRNA-level model for predicting microRNA targets
Background: Despite experiments showing that the number of microRNA (miRNA) target sites is critical for miRNA targeting, most existing methods focus on identifying individual miR...
Takaya Saito, Pål Sætrom