Related Experiment Video
Updated: Aug 8, 2026
10:50
Single-cell Gene Expression Profiling Using FACS and qPCR with Internal Standards
Published on: February 25, 2017
Exploring relationships in gene expressions: a partial least squares approach
1Department of Statistics and Mathematics, Georgia State University, Atlanta 30303, USA. sdatta@cs.gsu.edu
Gene Expression
|January 5, 2002
Summary
Partial least squares (PLS) is a statistical technique used to analyze gene expression data from microarrays. This method effectively models complex gene interrelationships and predicts gene expression patterns, aiding in the discovery of novel gene connections.
Area of Science:
- Genomics
- Bioinformatics
- Systems Biology
Background:
- Microarray technology enables large-scale gene function monitoring.
- Analysis of gene expression data integrates biology, computer science, and statistics.
- Existing methods like clustering group genes by similar expression, but understanding interrelationships remains challenging.
Purpose of the Study:
- To apply partial least squares (PLS), a statistical method, to analyze microarray data.
- To investigate the interrelationship of gene expression levels.
- To explore the utility of PLS for identifying gene relationships in yeast sporulation data.
Main Methods:
- Utilized partial least squares (PLS) regression for analyzing high-dimensional microarray data.
- Applied PLS to publicly available gene expression data from Saccharomyces cerevisiae sporulation.
- Investigated representative genes from temporal expression groups.
Main Results:
- PLS explained most gene expression variability using only two regression terms.
- Predicted gene expression levels from PLS closely matched true expression patterns over time.
- Comparison of gene functions revealed similar or related biological roles, including negative relationships.
Conclusions:
- Partial least squares (PLS) is effective for modeling complex gene expression interrelationships.
- PLS can accurately predict gene expression patterns and identify established gene relationships.
- This statistical approach serves as a valuable exploratory tool for discovering potential gene interactions for further biological validation.
Related Concept Videos
01:42What is Gene Expression?
Overview
Gene expression is the process in which DNA directs the synthesis of functional products, that is, proteins. Cells can regulate gene expression at various stages. It allows organisms to generate different cell types and enables cells to adapt to internal and external factors.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
Gene expression is the process in which DNA directs the synthesis of functional products, that is, proteins. Cells can regulate gene expression at various stages. It allows organisms to generate different cell types and enables cells to adapt to internal and external factors.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
01:09Epistasis Analysis
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
01:36What is Gene Expression?
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then processed and...
02:51mRNA Stability and Gene Expression
The structure and stability of mRNA molecules regulates gene expression, as mRNAs are a key step in the pathway from gene to protein. In eukaryotes, the half-life of mRNA varies from a few minutes up to several days. mRNA stability is essential in growth and development. The absence of the proteins regulating its stability, such as tristetraprolin in mice, can cause systemic issues, including bone marrow overgrowth, inflammation, and autoimmunity.
Cis-acting Elements involved in mRNA stability
Cis-acting Elements involved in mRNA stability
01:30Structure of a Gene
A gene is the fundamental unit of heredity. Every individual has two copies of each gene, one inherited from each parent. Although most people contain the same genes, there is a small fraction that is slightly different amongst people. A gene with a small difference in its sequence of DNA bases forms different alleles, contributing to different phenotypes.
However, only 1% of the DNA is composed of genes that encode proteins; the rest, 99% is non-coding DNA. This non-coding DNA performs...
However, only 1% of the DNA is composed of genes that encode proteins; the rest, 99% is non-coding DNA. This non-coding DNA performs...
01:20Gene-Environment Interactions
Gene expression is a dynamic process that is significantly influenced by environmental factors. This interaction underlies the complex nature of biological development and the phenotypic differences observed among individuals, even among those with identical genetic makeups. Factors such as radiation, temperature, behavior, nutrition, and stress play pivotal roles in determining how genes are expressed. The concept of the reaction range is central to understanding this interaction. It posits...