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» Hidden Markov models for detecting remote protein homologies
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BMCBI
2004
114views more  BMCBI 2004»
13 years 7 months ago
HMM Logos for visualization of protein families
Background: Profile Hidden Markov Models (pHMMs) are a widely used tool for protein family research. Up to now, however, there exists no method to visualize all of their central a...
Benjamin Schuster-Böckler, Jörg Schultz,...
JCSS
2007
116views more  JCSS 2007»
13 years 7 months ago
The most probable annotation problem in HMMs and its application to bioinformatics
Hidden Markov models (HMMs) are often used for biological sequence annotation. Each sequence feature is represented by a collection of states with the same label. In annotating a ...
Brona Brejová, Daniel G. Brown 0001, Tom&aa...
BIOINFORMATICS
2004
86views more  BIOINFORMATICS 2004»
13 years 7 months ago
Transposable element annotation of the rice genome
Motivation: The high content of repetitive sequences in the genomes of many higher eukaryotes renders the task of annotating them computationally intensive. Presently, the only wi...
Nikoleta Juretic, Thomas E. Bureau, Richard M. Bru...
IPPS
2007
IEEE
14 years 1 months ago
High Performance Database Searching with HMMer on FPGAs
1 Profile Hidden Markov Models (profile HMMs) are used as a popular bioinformatics tool for sensitive database searching, e.g. a set of not annotated protein sequences is compared...
Timothy F. Oliver, Leow Yuan Yeow, Bertil Schmidt
BMCBI
2005
198views more  BMCBI 2005»
13 years 7 months ago
Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural
Background: The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of t...
Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D....