Cargando…

MORPH: Probabilistic Alignment Combined with Hidden Markov Models of cis-Regulatory Modules

The discovery and analysis of cis-regulatory modules (CRMs) in metazoan genomes is crucial for understanding the transcriptional control of development and many other biological processes. Cross-species sequence comparison holds much promise for improving computational prediction of CRMs, for elucid...

Descripción completa

Detalles Bibliográficos
Autores principales:	Sinha, Saurabh, He, Xin
Formato:	Texto
Lenguaje:	English
Publicado:	Public Library of Science 2007
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2065892/ https://www.ncbi.nlm.nih.gov/pubmed/17997594 http://dx.doi.org/10.1371/journal.pcbi.0030216

Ejemplares similares

Alignment and Prediction of cis-Regulatory Modules Based on a Probabilistic Model of Evolution
por: He, Xin, et al.
Publicado: (2009)

A New Algorithm for Identifying Cis-Regulatory Modules Based on Hidden Markov Model
por: Guo, Haitao, et al.
Publicado: (2017)

Detection and characterization of regulatory elements using probabilistic conditional random field and hidden Markov models
por: Wang, Hongyan, et al.
Publicado: (2013)

Profile Comparer: a program for scoring and aligning profile hidden Markov models
por: Madera, Martin
Publicado: (2008)

Stubb: a program for discovery and analysis of cis-regulatory modules
por: Sinha, Saurabh, et al.
Publicado: (2006)

Inference in Hidden Markov Models
por: Cappe, Olivier
Publicado: (2005)

Hidden Markov Modeling with HMMTeacher
por: Fuentes-Beals, Camilo, et al.
Publicado: (2022)

Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction
por: Scheeff, Eric D, et al.
Publicado: (2006)

Hidden Markov Models Incorporating Fuzzy Measures and Integrals for Protein Sequence Identification and Alignment
por: Bidargaddi, Niranjan P., et al.
Publicado: (2008)

Alignment of Noncoding Ribonucleic Acids with Pseudoknots Using Context-Sensitive Hidden Markov Model
por: Bakhshayesh, Nayyer Mostaghim, et al.
Publicado: (2019)

Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses
por: Li, Long, et al.
Publicado: (2007)

Computational discovery of cis-regulatory modules in Drosophila without prior knowledge of motifs
por: Ivan, Andra, et al.
Publicado: (2008)

MUMMALS: multiple sequence alignment improved by using hidden Markov models with local structural information
por: Pei, Jimin, et al.
Publicado: (2006)

Hidden markov model for the prediction of transmembrane proteins using MATLAB
por: Chaturvedi, Navaneet, et al.
Publicado: (2011)

Hidden Markov Model Variants and their Application
por: Winters-Hilt, Stephen
Publicado: (2006)

Hidden Markov models: estimation and control
por: Elliott, Robert J, et al.
Publicado: (1995)

Error statistics of hidden Markov model and hidden Boltzmann model results
por: Newberg, Lee A
Publicado: (2009)

Multiple Hidden Markov Model for Pathological Vessel Segmentation
por: Hu, Xin, et al.
Publicado: (2018)

Scalable Bayesian Inference for Coupled Hidden Markov and Semi-Markov Models
por: Touloupou, Panayiota, et al.
Publicado: (2019)

Scanpath modeling and classification with hidden Markov models
por: Coutrot, Antoine, et al.
Publicado: (2017)

Modelling reassurances of clinicians with hidden Markov models
por: Popov, Valentin, et al.
Publicado: (2019)

Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model
por: Neuwald, Andrew F, et al.
Publicado: (2004)

Alignment of time course gene expression data and the classification of developmentally driven genes with hidden Markov models
por: Robinson, Sean, et al.
Publicado: (2015)

TRAL 2.0: Tandem Repeat Detection With Circular Profile Hidden Markov Models and Evolutionary Aligner
por: Delucchi, Matteo, et al.
Publicado: (2021)

Modeling Driver Behavior near Intersections in Hidden Markov Model
por: Li, Juan, et al.
Publicado: (2016)

ProbPFP: a multiple sequence alignment algorithm combining hidden Markov model optimized by particle swarm optimization with partition function
por: Zhan, Qing, et al.
Publicado: (2019)

Epitope Discovery with Phylogenetic Hidden Markov Models
por: Lacerda, Miguel, et al.
Publicado: (2010)

Estimating Empirical Codon Hidden Markov Models
por: De Maio, Nicola, et al.
Publicado: (2013)

Hidden Markov Models: The Best Models for Forager Movements?
por: Joo, Rocio, et al.
Publicado: (2013)

Skylign: a tool for creating informative, interactive logos representing sequence alignments and profile hidden Markov models
por: Wheeler, Travis J, et al.
Publicado: (2014)

Profile Comparer Extended: phylogeny of lytic polysaccharide monooxygenase families using profile hidden Markov model alignments
por: Voshol, Gerben P., et al.
Publicado: (2019)

Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila
por: Sinha, Saurabh, et al.
Publicado: (2004)

Constrained hidden Markov models for population-based haplotyping
por: Landwehr, Niels, et al.
Publicado: (2007)

Hidden semi-Markov models: theory, algorithms and applications
por: Yu, Shun-Zheng
Publicado: (2016)

Specialized Hidden Markov Model Databases for Microbial Genomics
por: Gollery, Martin
Publicado: (2003)

Riboswitch Detection Using Profile Hidden Markov Models
por: Singh, Payal, et al.
Publicado: (2009)

Disease surveillance using a hidden Markov model
por: Watkins, Rochelle E, et al.
Publicado: (2009)

Hidden Markov Models and their Applications in Biological Sequence Analysis
por: Yoon, Byung-Jun
Publicado: (2009)

Hidden Markov Models for Evolution and Comparative Genomics Analysis
por: Bykova, Nadezda A., et al.
Publicado: (2013)

A coupled hidden Markov model for disease interactions
por: Sherlock, Chris, et al.
Publicado: (2013)

Cannot write session to /tmp/vufind_sessions/sess_fpklpan3dctev1ft3bejv8ouqe