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» Invariant features for searching in protein fold databases
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BMCBI
2005
152views more  BMCBI 2005»
13 years 8 months ago
Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
Background: Profile hidden Markov model (HMM) techniques are among the most powerful methods for protein homology detection. Yet, the critical features for successful modelling ar...
Markus Wistrand, Erik L. L. Sonnhammer
BMCBI
2010
148views more  BMCBI 2010»
13 years 8 months ago
Analysis of interactions between ribosomal proteins and RNA structural motifs
Background: One important goal of structural bioinformatics is to recognize and predict the interactions between protein binding sites and RNA. Recently, a comprehensive analysis ...
Giovanni Ciriello, Claudio Gallina, Concettina Gue...
BMCBI
2010
123views more  BMCBI 2010»
13 years 3 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
118views more  BMCBI 2010»
13 years 8 months ago
Artificial neural networks for the prediction of peptide drift time in ion mobility mass spectrometry
Background: There is an increasing usage of ion mobility-mass spectrometry (IMMS) in proteomics. IMMS combines the features of ion mobility spectrometry (IMS) and mass spectrometr...
Bing Wang, Steve Valentine, Manolo Plasencia, Srir...
CSB
2005
IEEE
125views Bioinformatics» more  CSB 2005»
14 years 2 months ago
On Optimizing Distance-Based Similarity Search for Biological Databases
Similarity search leveraging distance-based index structures is increasingly being used for both multimedia and biological database applications. We consider distance-based indexi...
Rui Mao, Weijia Xu, Smriti R. Ramakrishnan, Glen N...