Cargando…

Riboswitch Detection Using Profile Hidden Markov Models

BACKGROUND: Riboswitches are a type of noncoding RNA that regulate gene expression by switching from one structural conformation to another on ligand binding. The various classes of riboswitches discovered so far are differentiated by the ligand, which on binding induces a conformational switch. Eve...

Descripción completa

Detalles Bibliográficos
Autores principales:	Singh, Payal, Bandyopadhyay, Pradipta, Bhattacharya, Sudha, Krishnamachari, A, Sengupta, Supratim
Formato:	Texto
Lenguaje:	English
Publicado:	BioMed Central 2009
Materias:	Methodology Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2770071/ https://www.ncbi.nlm.nih.gov/pubmed/19814811 http://dx.doi.org/10.1186/1471-2105-10-325

Ejemplares similares

Classification of HIV-1 Sequences Using Profile Hidden Markov Models
por: Dwivedi, Sanjiv K., et al.
Publicado: (2012)

Phylogenetic Analysis and Comparative Genomics of Purine Riboswitch Distribution in Prokaryotes
por: Singh, Payal, et al.
Publicado: (2012)

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

Flexible hidden Markov models for behaviour-dependent habitat selection
por: Klappstein, N. J., et al.
Publicado: (2023)

A Mixture Model and a Hidden Markov Model to Simultaneously Detect Recombination Breakpoints and Reconstruct Phylogenies
por: Boussau, Bastien, et al.
Publicado: (2009)

HaMStR: Profile hidden markov model based search for orthologs in ESTs
por: Ebersberger, Ingo, et al.
Publicado: (2009)

Predicting nucleosome positioning using a duration Hidden Markov Model
por: Xi, Liqun, et al.
Publicado: (2010)

Quantitative prediction of the effect of genetic variation using hidden Markov models
por: Liu, Mingming, et al.
Publicado: (2014)

Predicting enhancers in mammalian genomes using supervised hidden Markov models
por: Zehnder, Tobias, et al.
Publicado: (2019)

A jumping profile Hidden Markov Model and applications to recombination sites in HIV and HCV genomes
por: Schultz, Anne-Kathrin, et al.
Publicado: (2006)

Inference of mechanical states of intestinal motor activity using hidden Markov models
por: Wiklendt, Lukasz, et al.
Publicado: (2013)

Implementing EM and Viterbi algorithms for Hidden Markov Model in linear memory
por: Churbanov, Alexander, et al.
Publicado: (2008)

RSpred, a set of Hidden Markov Models to detect and classify the RIFIN and STEVOR proteins of Plasmodium falciparum
por: Joannin, Nicolas, et al.
Publicado: (2011)

Fast MCMC sampling for hidden markov models to determine copy number variations
por: Mahmud, Md Pavel, et al.
Publicado: (2011)

Replicability analysis in genome-wide association studies via Cartesian hidden Markov models
por: Wang, Pengfei, et al.
Publicado: (2019)

A new algorithm to train hidden Markov models for biological sequences with partial labels
por: Li, Jiefu, et al.
Publicado: (2021)

Profile hidden Markov model sequence analysis can help remove putative pseudogenes from DNA barcoding and metabarcoding datasets
por: Porter, T. M., et al.
Publicado: (2021)

Comparative genomics and phylogenomic analyses of lysine riboswitch distributions in bacteria
por: Mukherjee, Sumit, et al.
Publicado: (2017)

A hidden Markov model approach for determining expression from genomic tiling micro arrays
por: Munch, Kasper, et al.
Publicado: (2006)

Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum
por: Terrapon, Nicolas, et al.
Publicado: (2012)

HMM-ModE – Improved classification using profile hidden Markov models by optimising the discrimination threshold and modifying emission probabilities with negative training sequences
por: Srivastava, Prashant K, et al.
Publicado: (2007)

A Hidden Markov Model to estimate population mixture and allelic copy-numbers in cancers using Affymetrix SNP arrays
por: Lamy, Philippe, et al.
Publicado: (2007)

A hidden Markov model for reconstructing animal paths from solar geolocation loggers using templates for light intensity
por: Rakhimberdiev, Eldar, et al.
Publicado: (2015)

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

A hidden Markov tree model for testing multiple hypotheses corresponding to Gene Ontology gene sets
por: Liang, Kun, et al.
Publicado: (2018)

Identification and characterization of subfamily-specific signatures in a large protein superfamily by a hidden Markov model approach
por: Truong, Kevin, et al.
Publicado: (2002)

Large-scale multiple testing in genome-wide association studies via region-specific hidden Markov models
por: Xiao, Jian, et al.
Publicado: (2013)

hsegHMM: hidden Markov model-based allele-specific copy number alteration analysis accounting for hypersegmentation
por: Choo-Wosoba, Hyoyoung, et al.
Publicado: (2018)

Fault detection on fluid machinery using Hidden Markov Models
por: Arpaia, P, et al.
Publicado: (2020)

Profile Hidden Markov Models for the Detection of Viruses within Metagenomic Sequence Data
por: Skewes-Cox, Peter, et al.
Publicado: (2014)

Phylogenomic and comparative analysis of the distribution and regulatory patterns of TPP riboswitches in fungi
por: Mukherjee, Sumit, et al.
Publicado: (2018)

Auto-HMM-LMF: feature selection based method for prediction of drug response via autoencoder and hidden Markov model
por: Emdadi, Akram, et al.
Publicado: (2021)

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

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

Regression hidden Markov modeling reveals heterogeneous gene expression regulation: a case study in mouse embryonic stem cells
por: Lee, Yeonok, et al.
Publicado: (2014)

A Hidden Markov Model for identifying essential and growth-defect regions in bacterial genomes from transposon insertion sequencing data
por: DeJesus, Michael A, et al.
Publicado: (2013)

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

Extension of the viral ecology in humans using viral profile hidden Markov models
por: Bzhalava, Zurab, et al.
Publicado: (2018)

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)

Cannot write session to /tmp/vufind_sessions/sess_sksujie8rbthun6bgmiei9l6r3