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» Gene prediction in eukaryotes with a generalized hidden Mark...
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NAR
2008
103views more  NAR 2008»
13 years 5 months ago
DBD--taxonomically broad transcription factor predictions: new content and functionality
DNA-binding domain (DBD) is a database of predicted sequence-specific DNA-binding transcription factors (TFs) for all publicly available proteomes. The proteomes have increased fr...
Derek Wilson, Varodom Charoensawan, Sarah K. Kumme...
BMCBI
2010
87views more  BMCBI 2010»
13 years 5 months ago
Epigenetic domains found in mouse embryonic stem cells via a hidden Markov model
Background: Epigenetics is an important layer of transcriptional control necessary for cell-type specific gene regulation. Recent studies have shown significant epigenetic pattern...
Jessica L. Larson, Guo-Cheng Yuan
BMCBI
2005
89views more  BMCBI 2005»
13 years 5 months ago
An empirical analysis of training protocols for probabilistic gene finders
Background: Generalized hidden Markov models (GHMMs) appear to be approaching acceptance as a de facto standard for state-of-the-art ab initio gene finding, as evidenced by the re...
William H. Majoros, Steven Salzberg
ISI
2006
Springer
13 years 5 months ago
An Embedded Bayesian Network Hidden Markov Model for Digital Forensics
In the paper we combine a Bayesian Network model for encoding forensic evidence during a given time interval with a Hidden Markov Model (EBN-HMM) for tracking and predicting the de...
Olivier Y. de Vel, Nianjun Liu, Terry Caelli, Tib&...
BMCBI
2004
111views more  BMCBI 2004»
13 years 5 months ago
The Hotdog fold: wrapping up a superfamily of thioesterases and dehydratases
Background: The Hotdog fold was initially identified in the structure of Escherichia coli FabA and subsequently in 4-hydroxybenzoyl-CoA thioesterase from Pseudomonas sp. strain CB...
Shane C. Dillon, Alex Bateman