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Conditional random fields: Probabilistic models for segmenting and labeling sequence data
, 2001
"... We present conditional random fields, a framework for building probabilistic models to segment and label sequence data. Conditional random fields offer several advantages over hidden Markov models and stochastic grammars for such tasks, including the ability to relax strong independence assumptions ..."
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Cited by 3396 (85 self)
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We present conditional random fields, a framework for building probabilistic models to segment and label sequence data. Conditional random fields offer several advantages over hidden Markov models and stochastic grammars for such tasks, including the ability to relax strong independence assumptions
Maximum entropy markov models for information extraction and segmentation
, 2000
"... Hidden Markov models (HMMs) are a powerful probabilistic tool for modeling sequential data, and have been applied with success to many textrelated tasks, such as partofspeech tagging, text segmentation and information extraction. In these cases, the observations are usually modeled as multinomial ..."
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Cited by 553 (17 self)
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as multinomial distributions over a discrete vocabulary, and the HMM parameters are set to maximize the likelihood of the observations. This paper presents a new Markovian sequence model, closely related to HMMs, that allows observations to be represented as arbitrary overlapping features (such as word
The complete genome sequence of Escherichia coli K12
 Science
, 1997
"... The 4,639,221–base pair sequence of Escherichia coli K12 is presented. Of 4288 proteincoding genes annotated, 38 percent have no attributed function. Comparison with five other sequenced microbes reveals ubiquitous as well as narrowly distributed gene families; many families of similar genes withi ..."
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Cited by 1106 (39 self)
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oriented. The genome also contains insertion sequence (IS) elements, phage remnants, and many other patches of unusual composition indicating genome plasticity through horizontal transfer. Because of its extraordinary position as a preferred model in biochemical genetics, molecular biology
Tandem repeats finder: a program to analyze DNA sequences
, 1999
"... A tandem repeat in DNA is two or more contiguous, approximate copies of a pattern of nucleotides. Tandem repeats have been shown to cause human disease, may play a variety of regulatory and evolutionary roles and are important laboratory and analytic tools. Extensive knowledge about pattern size, co ..."
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Cited by 948 (9 self)
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, copy number, mutational history, etc. for tandem repeats has been limited by the inability to easily detect them in genomic sequence data. In this paper, we present a new algorithm for finding tandem repeats which works without the need to specify either the pattern or pattern size. We model tandem
Hidden Markov models in computational biology: applications to protein modeling
 JOURNAL OF MOLECULAR BIOLOGY
, 1994
"... Hidden.Markov Models (HMMs) are applied t.0 the problems of statistical modeling, database searching and multiple sequence alignment of protein families and protein domains. These methods are demonstrated the on globin family, the protein kinase catalytic domain, and the EFhand calcium binding moti ..."
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Cited by 648 (38 self)
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Hidden.Markov Models (HMMs) are applied t.0 the problems of statistical modeling, database searching and multiple sequence alignment of protein families and protein domains. These methods are demonstrated the on globin family, the protein kinase catalytic domain, and the EFhand calcium binding
A Critical Point For Random Graphs With A Given Degree Sequence
, 2000
"... Given a sequence of nonnegative real numbers 0 ; 1 ; : : : which sum to 1, we consider random graphs having approximately i n vertices of degree i. Essentially, we show that if P i(i \Gamma 2) i ? 0 then such graphs almost surely have a giant component, while if P i(i \Gamma 2) i ! 0 the ..."
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Cited by 496 (8 self)
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Given a sequence of nonnegative real numbers 0 ; 1 ; : : : which sum to 1, we consider random graphs having approximately i n vertices of degree i. Essentially, we show that if P i(i \Gamma 2) i ? 0 then such graphs almost surely have a giant component, while if P i(i \Gamma 2) i ! 0
The Infinite Hidden Markov Model
 Machine Learning
, 2002
"... We show that it is possible to extend hidden Markov models to have a countably infinite number of hidden states. By using the theory of Dirichlet processes we can implicitly integrate out the infinitely many transition parameters, leaving only three hyperparameters which can be learned from data. Th ..."
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Cited by 627 (41 self)
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We show that it is possible to extend hidden Markov models to have a countably infinite number of hidden states. By using the theory of Dirichlet processes we can implicitly integrate out the infinitely many transition parameters, leaving only three hyperparameters which can be learned from data
What is a hidden Markov model?
, 2004
"... Often, problems in biological sequence analysis are just a matter of putting the right label on each residue. In gene identification, we want to label nucleotides as exons, introns, or intergenic sequence. In sequence alignment, we want to associate residues in a query sequence with homologous resi ..."
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Cited by 1332 (8 self)
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Often, problems in biological sequence analysis are just a matter of putting the right label on each residue. In gene identification, we want to label nucleotides as exons, introns, or intergenic sequence. In sequence alignment, we want to associate residues in a query sequence with ho
Nonparametric model for background subtraction
 in ECCV ’00
, 2000
"... Abstract. Background subtraction is a method typically used to segment moving regions in image sequences taken from a static camera by comparing each new frame to a model of the scene background. We present a novel nonparametric background model and a background subtraction approach. The model can ..."
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Cited by 537 (17 self)
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Abstract. Background subtraction is a method typically used to segment moving regions in image sequences taken from a static camera by comparing each new frame to a model of the scene background. We present a novel nonparametric background model and a background subtraction approach. The model
Results 1  10
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