Identification and analysis of eukaryotic promoters: recent computational approaches.
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Summary
A short overview of the state-of-the-art techniques for computational promoter localization and analysis, and comments on the most recent advances in the field are given.
- Type
- article
- Published
- 2001-02-01
- Cited by
- 197
- References
- 29
- OpenAlex
- https://openalex.org/W1964007348
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:548863
Keywords
Promoter, Biology, Computational biology, Genome, Identification (biology)
References
- The Gene-Finder Computer Tools for Analysis of Human and Model Organisms Genome Sequences
- Large-scale human promoter mapping using CpG islands
- An Exact Algorithm to Identify Motifs in Orthologous Sequences from Multiple Species
- Combinatorial Approaches to Finding Subtle Signals in DNA Sequences
- A Statistical Method for Finding Transcription Factor Binding Sites
- Models for prediction and recognition of eukaryotic promoters
- Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment.
- Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
- Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis.
- Human-mouse genome comparisons to locate regulatory sites
- SCPD: a promoter database of the yeast Saccharomyces cerevisiae
- Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies.
- Identification of regulatory regions which confer muscle-specific gene expression.
- Insertion site preferences of the P transposable element in Drosophila melanogaster.
- Predicting Pol II promoter sequences using transcription factor binding sites.
- Searching for regulatory elements in human noncoding sequences.
- Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization.
- The Biology of Eukaryotic Promoter Prediction - A Review
- Highly specific localization of promoter regions in large genomic sequences by PromoterInspector: a novel context analysis approach.
- Identification of human gene core promoters in silico.
Cited by
- Deciphering gene expression regulatory networks.
- Using Hybrid Hierarchical K-means (HHK) clustering algorithm for protein sequence motif Super-Rule-Tree (SRT) structure construction
- Artificial Neural Networks Based Systems for Recognition of Genomic Signals and Regions: A Review
- Identification of Relevant Protein-Gene Associations by Integrating Gene Expression Data and Transcriptional Regulatory Networks.
- The Probability Distribution of Distance TSS-TLS Is Organism Characteristic and Can Be Used for Promoter Prediction
- Bioinformatics of nuclear receptors.
- Clustering using Positional Association Rules Algorithm on Protein Sequence Motifs
- Distance-enhanced association rules for gene expression
- Genome-wide proximal promoter analysis and interpretation.
- CSPC: A Monitoring Procedure for State Dependent Processes
- Understanding a Genome Sequence
- Clustering biological data using a hybrid approach : Composition of clusterings from different features
- Towards a Complete Transcriptional Regulatory Code: Improved Motif Discovery Using Informative Priors
- Methods for the inference of biological pathways and networks.
- Elucidating the Role of Spy1A during c-Myc Induced Mammary Tumor Development
- Finding transcriptional regulatory elements in Dictyostelium gene expression
- Context-Based Statistical Process Control
- Identification of cis-Regulatory Elements in Gene Co-expression Networks Using A-GLAM
- Computational Systems Biology
- Promoter Analysis: Gene Regulatory Motif Identification with A-GLAM
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