A Computational Approach to Identify Transcription Factor Binding Sites Containing Spacer Regions
Publication Date
1-1-2021
Document Type
Conference Proceeding
Publication Title
Proceedings - 2021 International Conference on Computational Science and Computational Intelligence, CSCI 2021
DOI
10.1109/CSCI54926.2021.00132
First Page
366
Last Page
369
Abstract
A critical challenge in studying gene regulation is deciphering functionally important regions of DNA which when altered, can affect gene activation levels. Bioinformatics tools have been developed to extract motifs from the human genome using methods such as position weight matrices (PWMs), Hidden Markov Models (HMMs), and machine learning (ML). However, these methods are not suitable for motifs with variable spacer regions or when insufficient experimentally validated sequences exist in the literature to build models. In this paper, we present a computational method to identify and extract motifs in conjunction with other high throughput methods such as protein binding microarrays.
Keywords
bioinformatics, gene regulation, motif, protein binding microarray, Sequence Paired Site (SPS)
Department
Biological Sciences; Computer Science
Recommended Citation
Punithavathi Sundaramurthy, Brandon White, and Wendy Lee. "A Computational Approach to Identify Transcription Factor Binding Sites Containing Spacer Regions" Proceedings - 2021 International Conference on Computational Science and Computational Intelligence, CSCI 2021 (2021): 366-369. https://doi.org/10.1109/CSCI54926.2021.00132
