Gene Regulation and Motif Discovery
نویسنده
چکیده
Genetic information is stored in living organisms in DNA, RNA and protein molecules. The primary structure of these molecules is a linear chain, and hence they can be viewed as sequences of letters. This sequential biological information can be transferred between DNA, RNA and protein molecules. The so-called “central dogma of molecular biology” describes which types of transfers are allowed: information cannot be transferred from protein to either protein, DNA or RNA, but all other transfers are allowed. Under normal conditions, only three transfers typically occur: DNA to DNA (DNA replication), DNA to mRNA (transcription), and RNA to protein (translation). This article is about transcription, where DNA information is copied to messenger RNA (mRNA), a type of RNA which encodes the information required to create a protein product.
منابع مشابه
Development of an Efficient Hybrid Method for Motif Discovery in DNA Sequences
This work presents a hybrid method for motif discovery in DNA sequences. The proposed method called SPSO-Lk, borrows the concept of Chebyshev polynomials and uses the stochastic local search to improve the performance of the basic PSO algorithm as a motif finder. The Chebyshev polynomial concept encourages us to use a linear combination of previously discovered velocities beyond that proposed b...
متن کاملLeveraging cross-link modification events in CLIP-seq for motif discovery
High-throughput protein-RNA interaction data generated by CLIP-seq has provided an unprecedented depth of access to the activities of RNA-binding proteins (RBPs), the key players in co- and post-transcriptional regulation of gene expression. Motif discovery forms part of the necessary follow-up data analysis for CLIP-seq, both to refine the exact locations of RBP binding sites, and to character...
متن کاملA pr 2 01 2 BAYESIAN CENTROID ESTIMATION FOR MOTIF DISCOVERY
Biological sequences may contain patterns that are signal important biomolecular functions; a classical example is regulation of gene expression by transcription factors that bind to specific patterns in genomic promoter regions. In motif discovery we are given a set of sequences that share a common motif and aim to identify not only the motif composition, but also the binding sites in each seq...
متن کاملMoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes
Understanding the complex mechanisms regulating gene expression at the transcriptional and post-transcriptional levels is one of the greatest challenges of the post-genomic era. The MoD (MOtif Discovery) Tools web server comprises a set of tools for the discovery of novel conserved sequence and structure motifs in nucleotide sequences, motifs that in turn are good candidates for regulatory acti...
متن کاملA Combined Model and a Varied Gibbs Sampling Algorithm Used for Motif Discovery
The conserved sequences in gene regulatory regions dominate gene regulation. Discovering these sequences and their functions is important in post genome era. A novel model is constructed to represent conserved motifs of DNA sequences. This model is a combination of PWM and WAM models. The advantage is the new model not only can comprise individual base frequencies in the motifs, but also can em...
متن کاملLimitations and potentials of current motif discovery algorithms
Computational methods for de novo identification of gene regulation elements, such as transcription factor binding sites, have proved to be useful for deciphering genetic regulatory networks. However, despite the availability of a large number of algorithms, their strengths and weaknesses are not sufficiently understood. Here, we designed a comprehensive set of performance measures and benchmar...
متن کامل