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The Eukaryotic Promoter Region

The Eukaryotic Promoter Region

The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...

The Eukaryotic Promoter Region

The Eukaryotic Promoter Region

The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...

Transcription Initiation

Transcription Initiation

Initiation is the first step of transcription in eukaryotes. Prokaryotic RNA Polymerase (RNAP) can bind to the template DNA and start transcribing. On the other hand, transcription in eukaryotes requires additional proteins, called transcription factors, to first bind to the promoter region in the DNA template. This binding helps recruit the specific RNAP that can assemble on the DNA and start transcription.
The promoters and enhancers and their accessory proteins allow tight regulation of...

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Related Experiment Video

Updated: May 16, 2026

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Published on: June 28, 2018

Predicting promoters by pseudo-trinucleotide compositions based on discrete wavelets transform.

Xuan Zhou¹, Zhanchao Li, Zong Dai

¹School of Pharmacy, Guangdong Pharmaceutical University, Guangzhou 510006, PR China. veego_z@hotmail.com

Journal of Theoretical Biology

|December 6, 2012

Summary

This summary is machine-generated.

This study introduces pseudo-trinucleotide compositions using discrete wavelet transform for DNA sequence analysis. This novel method significantly improves the accuracy of predicting DNA functions like promoters.

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DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling

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Published on: October 8, 2019

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

Accurate DNA sequence representation is crucial for predicting biological functions.
Traditional methods like trinucleotide compositions have limitations in capturing complex sequence patterns.

Purpose of the Study:

To propose a novel DNA sequence representation technique, pseudo-trinucleotide compositions, integrating discrete wavelet transform.
To enhance the prediction accuracy of DNA functional elements, specifically promoters, using this new method.

Main Methods:

Discrete wavelet transform was applied to trinucleotide compositions to create pseudo-trinucleotide compositions.
Support Vector Machines (SVM) were modeled using these pseudo-trinucleotide compositions for promoter prediction.
The model was validated using the genie dataset with jackknife validation.

Main Results:

Achieved an 82.46% overall accuracy for classifying promoters, introns, and exons.
Obtained an 82.18% accuracy for classifying promoters and unpromoters.
Demonstrated superior performance compared to previous DNA sequence representation and prediction methods.

Conclusions:

Pseudo-trinucleotide composition based on discrete wavelet transform is an effective DNA sequence representation method.
This approach plays a significant role in improving the accuracy of DNA function prediction, particularly for promoters.
The findings suggest potential for broader applications in genomic sequence analysis and functional prediction.