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Related Concept Videos

IP3/DAG Signaling Pathway01:11

IP3/DAG Signaling Pathway

Membrane lipids such as phosphatidylinositol (PI) are precursors for several membrane-bound and soluble second messengers. Specific kinases phosphorylate PI and produce phosphorylated inositol phospholipids. One such inositol phospholipids are the  phosphatidylinositol-4,5 bisphosphate [PI(4,5)P2], present in the inner half of the lipid bilayer. Upon ligand binding, GPCR stimulates Gq proteins to turn on phospholipase Cꞵ. Activated phospholipase Cꞵ cleaves PI(4,5)P2 and produces two-second...
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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
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Related Experiment Video

Updated: Jun 2, 2026

A Web Tool for Generating High Quality Machine-readable Biological Pathways
08:01

A Web Tool for Generating High Quality Machine-readable Biological Pathways

Published on: February 8, 2017

iPath2.0: interactive pathway explorer.

Takuji Yamada1, Ivica Letunic, Shujiro Okuda

  • 1EMBL, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

Nucleic Acids Research
|May 7, 2011
PubMed
Summary
This summary is machine-generated.

iPath2.0 is a web-based tool for visualizing and analyzing cellular pathways. It helps users explore metabolic and regulatory networks, aiding genomics and metagenomics data interpretation.

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Area of Science:

  • Bioinformatics
  • Systems Biology
  • Metabolomics

Background:

  • Cellular pathways are crucial for understanding biological systems.
  • Visualizing complex metabolic and regulatory networks is challenging.
  • Genomics and metagenomics projects generate large datasets requiring interpretation.

Purpose of the Study:

  • To introduce iPath2.0, a web-based tool for pathway visualization and analysis.
  • To provide interactive maps of metabolism, secondary metabolite biosynthesis, and regulatory pathways.
  • To enable users to customize pathway maps with their own data for intuitive analysis.

Main Methods:

  • Development of a web-based platform utilizing an interactive Flash-based viewer.
  • Creation of pre-computed overview maps for metabolism, secondary metabolites, and regulatory pathways.
  • Implementation of data mapping tools for user-uploaded datasets to customize pathway visualizations.

Main Results:

  • iPath2.0 offers a comprehensive primary map of biological metabolism.
  • Additional maps provide overviews of secondary metabolite biosynthesis and key regulatory pathways.
  • Users can upload and map their data onto customizable pathway visualizations.

Conclusions:

  • iPath2.0 facilitates intuitive exploration and analysis of cellular pathways.
  • The tool supports the interpretation of genomics and metagenomics data through customized pathway maps.
  • iPath2.0 enhances understanding of biological systems by integrating pathway visualization with user-specific data.