Heterogeneity in DNA multiple alignments: modeling, inference, and applications in motif finding
DOI10.1111/J.1541-0420.2009.01362.XzbMATH Open1203.62184OpenAlexW1973109377WikidataQ46679108 ScholiaQ46679108MaRDI QIDQ3064253FDOQ3064253
Publication date: 21 December 2010
Published in: Biometrics (Search for Journal in Brave)
Full work available at URL: https://escholarship.org/uc/item/18d3254v
Recommendations
- A transdimensional Bayesian model for pattern recognition in DNA sequences
- Context dependent models for discovery of transcription factor binding sites
- Supervised Detection of Regulatory Motifs in DNA Sequences
- Finding transcription factor binding motifs for coregulated genes by combining sequence overrepresentation with cross-species conservation
- A Simple Hyper-Geometric Approach for Discovering Putative Transcription Factor Binding Sites
HMMsegmentationmotif findingbackground modelingtranscription factor binding siteevolutionary conservationnucleotide base composition
Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.) (60J20) Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10) Applications of mathematical programming (90C90) Biochemistry, molecular biology (92C40) Genetics and epigenetics (92D10)
Cites Work
- Reversible jump Markov chain Monte Carlo computation and Bayesian model determination
- Stochastic models for heterogeneous DNA sequences
- Algorithms for the optimal identification of segment neighborhoods
- Multiple changepoint fitting via quasilikelihood, with application to DNA sequence segmentation
- Statistical methods for DNA sequence segmentation
- A Bayesian Approach to DNA Sequence Segmentation
- Sampling motifs on phylogenetic trees
- Bayesian Models for Multiple Local Sequence Alignment and Gibbs Sampling Strategies
- Selecting Differentially Expressed Genes from Microarray Experiments
- Discovery of Conserved Sequence Patterns Using a Stochastic Dictionary Model
- Computational Biology: Toward Deciphering Gene Regulatory Information in Mammalian Genomes
- Coupling hidden Markov models for the discovery of Cis-regulatory modules in multiple species
Cited In (5)
- Estimating the occurrence rate of DNA palindromes
- Context dependent models for discovery of transcription factor binding sites
- Estimating Motifs Under Order Restrictions
- \textsc{motifDiverge}: a model for assessing the statistical significance of gene regulatory motif divergence between two DNA sequences
- Flexible statistical modelling of the occurrences of transcription factor binding sites along a DNA sequence
Uses Software
This page was built for publication: Heterogeneity in DNA multiple alignments: modeling, inference, and applications in motif finding
Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q3064253)
