Related Experiment Video
Updated: Feb 5, 2026
07:18
Obtaining High-Quality Transcriptome Data from Cereal Seeds by a Modified Method for Gene Expression Profiling
Published on: May 21, 2020
7.9K
KeggExp: a web server for visual integration of KEGG pathways and expression profile data
Xian Liu1, Mingfei Han1, Chen Zhao1
1State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences (Beijing), Beijing Institute of Lifeomics, Beijing, P.R. China.
Bioinformatics (Oxford, England)
|September 12, 2018
Summary
KeggExp enhances gene expression analysis by integrating pathway maps with interactive visualizations. This tool helps researchers identify key genes and pathways without needing programming skills.
Area of Science:
- Bioinformatics
- Systems Biology
- Genomics
Background:
- Effective visualization is crucial for knowledge discovery in gene expression profile analysis.
- Current tools often lack comprehensive interactive visualization for integrating expression data with KEGG pathway maps.
Purpose of the Study:
- To introduce KeggExp, a novel tool for interactive visualization of gene expression data integrated with KEGG pathways.
- To enable researchers, including those without programming expertise, to identify key genes and pathways.
Main Methods:
- KeggExp simultaneously displays pathway maps, gene dendrograms, heatmaps, and scatter plots.
- It offers interactive features for highlighting specific genes (differentially expressed, co-expressed, user-input) on pathway maps.
Main Results:
- The tool successfully integrates multiple visualization components for expression profile data.
- Interactive highlighting facilitates the identification of significant genes within pathways.
Conclusions:
- KeggExp provides an intuitive and powerful platform for analyzing gene expression data.
- Its interactive capabilities improve the process of knowledge discovery in pathway analysis.
Related Concept Videos
01:22Photoreceptors and Visual Pathways
9.3K
At the molecular level, visual signals trigger transformations in photopigment molecules, resulting in changes in the photoreceptor cell's membrane potential. The photon's energy level is denoted by its wavelength, with each specific wavelength of visible light associated with a distinct color. The spectral range of visible light, classified as electromagnetic radiation, spans from 380 to 720 nm. Electromagnetic radiation wavelengths exceeding 720 nm fall under the infrared category,...
9.3K
01:27C4 Pathway and CAM
49.2K
Most plants use the C3 pathway for carbon fixation. However, some plants, such as sugar cane, corn, and cacti that grow in hot conditions, use alternative pathways to fix carbon and conserve energy loss due to photorespiration. Photorespiration is the process that occurs when the oxygen concentration is high. Under such conditions, the rubisco enzyme in the Calvin cycle binds O2 instead of CO2, which halts photosynthesis and consumes energy.
C4 Pathway
The C4 pathway is used by plants such as...
C4 Pathway
The C4 pathway is used by plants such as...
49.2K
01:26Integration by Parts: Indefinite Integrals
183
Integration by parts is a fundamental technique in calculus for evaluating integrals involving the product of two functions. It is particularly useful when direct integration is not feasible. The method is based on the product rule for differentiation, which states that the derivative of a product equals the derivative of the first function times the second, plus the first function times the derivative of the second. By integrating this identity and rearranging terms, the integration by parts...
183
01:23Integration by Parts: Definite Integrals
85
Definite integrals involving the product of two functions over a fixed interval can be evaluated using integration by parts. This method rewrites the integral as the difference of a product evaluated at the endpoints and a remaining definite integral that is often simpler to compute.A representative example is the definite integral of the inverse tangent function. Since there is no direct integration formula for arctan x, the integrand is rewritten as a product of arctan x and the...
85
02:39The Integrated Rate Law: The Dependence of Concentration on Time
42.5K
While the differential rate law relates the rate and concentrations of reactants, a second form of rate law called the integrated rate law relates concentrations of reactants and time. Integrated rate laws can be used to determine the amount of reactant or product present after a period of time or to estimate the time required for a reaction to proceed to a certain extent. For example, an integrated rate law helps determine the length of time a radioactive material must be stored for its...
42.5K
02:51mRNA Stability and Gene Expression
6.7K
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
6.7K