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The SWISSMODEL Workspace: A webbased environment for protein structure homology modelling
 BIOINFORMATICS
, 2005
"... Motivation: Homology models of proteins are of great interest for planning and analyzing biological experiments when no experimental threedimensional structures are available. Building homology models requires specialized programs and uptodate sequence and structural databases. Integrating all re ..."
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Cited by 555 (5 self)
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Motivation: Homology models of proteins are of great interest for planning and analyzing biological experiments when no experimental threedimensional structures are available. Building homology models requires specialized programs and uptodate sequence and structural databases. Integrating all
SWISSMODEL: an automated protein homologymodeling server
 Nucleic Acids Research
, 2003
"... SWISSMODEL ..."
of homology models in automated homology modeling
, 2007
"... Using multiple templates to improve quality of homology models in automated homology modeling ..."
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Using multiple templates to improve quality of homology models in automated homology modeling
Homology modeling
 Methods of Biochemical Analysis
"... The ultimate goal of protein modeling is to predict a structure from its sequence with an accuracy that is comparable to the best results achieved experimentally. This would allow users to safely use rapidly generated in silico protein models in all the contexts where today only experimental structu ..."
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Cited by 11 (1 self)
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fail. Many proteins are simply too large for NMR analysis and cannot be crystallized for Xray diffraction. Among the three major approaches to threedimensional (3D) structure prediction described in this and the following two chapters, homology modeling is the easiest one. It is based on two major
homology modeling programs
, 2004
"... All are not equal: A benchmark of different homology modeling ..."
Homological Algebra of Mirror Symmetry
 in Proceedings of the International Congress of Mathematicians
, 1994
"... Mirror Symmetry was discovered several years ago in string theory as a duality between families of 3dimensional CalabiYau manifolds (more precisely, complex algebraic manifolds possessing holomorphic volume elements without zeroes). The name comes from the symmetry among Hodge numbers. For dual Ca ..."
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Cited by 529 (3 self)
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Mirror Symmetry was discovered several years ago in string theory as a duality between families of 3dimensional CalabiYau manifolds (more precisely, complex algebraic manifolds possessing holomorphic volume elements without zeroes). The name comes from the symmetry among Hodge numbers. For dual CalabiYau manifolds V, W of dimension n (not necessarily equal to 3) one has dim H p (V, Ω q) = dim H n−p (W, Ω q). Physicists conjectured that conformal field theories associated with mirror varieties are equivalent. Mathematically, MS is considered now as a relation between numbers of rational curves on such a manifold and Taylor coefficients of periods of Hodge structures considered as functions on the moduli space of complex structures on a mirror manifold. Recently it has been realized that one can make predictions for numbers of curves of positive genera and also on CalabiYau manifolds of arbitrary dimensions. We will not describe here the complicated history of the subject and will not mention many beautiful contsructions, examples and conjectures motivated
Hidden Markov models for detecting remote protein homologies
 Bioinformatics
, 1998
"... A new hidden Markov model method (SAMT98) for nding remote homologs of protein sequences is described and evaluated. The method begins with a single target sequence and iteratively builds a hidden Markov model (hmm) from the sequence and homologs found using the hmm for database search. SAMT98 is ..."
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Cited by 463 (15 self)
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A new hidden Markov model method (SAMT98) for nding remote homologs of protein sequences is described and evaluated. The method begins with a single target sequence and iteratively builds a hidden Markov model (hmm) from the sequence and homologs found using the hmm for database search. SAMT98
Sequence Matching in Homology Modeling
"... Homologybased modeling, or more simply homology modeling, is becoming increasingly important. Models accurate to within 12 Å RMS deviation from the actual threedimensional structure can be produced by homology modeling in favorable cases. With the number of known threedimensional structures proje ..."
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Homologybased modeling, or more simply homology modeling, is becoming increasingly important. Models accurate to within 12 Å RMS deviation from the actual threedimensional structure can be produced by homology modeling in favorable cases. With the number of known threedimensional structures
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 1333 (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 homologous
Exploiting Generative Models in Discriminative Classifiers
 In Advances in Neural Information Processing Systems 11
, 1998
"... Generative probability models such as hidden Markov models provide a principled way of treating missing information and dealing with variable length sequences. On the other hand, discriminative methods such as support vector machines enable us to construct flexible decision boundaries and often resu ..."
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Cited by 538 (11 self)
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Generative probability models such as hidden Markov models provide a principled way of treating missing information and dealing with variable length sequences. On the other hand, discriminative methods such as support vector machines enable us to construct flexible decision boundaries and often
Results 1  10
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