Chapter title |
The Identification of Cis-Regulatory Sequence Motifs in Gene Promoters Based on SNP Information
|
---|---|
Chapter number | 3 |
Book title |
Plant Synthetic Promoters
|
Published in |
Methods in molecular biology, January 2016
|
DOI | 10.1007/978-1-4939-6396-6_3 |
Pubmed ID | |
Book ISBNs |
978-1-4939-6394-2, 978-1-4939-6396-6
|
Authors |
Paula Korkuć, Dirk Walther |
Editors |
Reinhard Hehl |
Abstract |
Conservation of particular molecular sequence motifs throughout evolution is a strong indicator of their functional relevance as selective pressure likely prevented the accumulation of mutations. Known as "phylogenetic footprinting", this rationale has been exploited for the identification of novel functional motifs using sequence information from sequence alignments of diverse species, in particular transcription factor binding site motifs in aligned gene promoter sequences of orthologous genes. With the rapid advances of sequencing technologies, whole genome sequence information is accumulating not only across different species, but increasingly for variants of the same species exhibiting relatively little sequence variability, primarily present as single nucleotide polymorphisms (SNPs). Here, we lay out the basic strategy for the identification of functional cis-regulatory motifs in gene promoter regions based on SNP information. |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 10 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 3 | 30% |
Lecturer > Senior Lecturer | 1 | 10% |
Student > Doctoral Student | 1 | 10% |
Professor | 1 | 10% |
Student > Bachelor | 1 | 10% |
Other | 2 | 20% |
Unknown | 1 | 10% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 8 | 80% |
Computer Science | 1 | 10% |
Unknown | 1 | 10% |