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Related Concept Videos

Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
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...
Interactions Between Signaling Pathways01:19

Interactions Between Signaling Pathways

Signaling cascades usually lack linearity. Multiple pathways interact and regulate one another, allowing cells to integrate and respond to diverse environmental stimuli.
Convergence and divergence, and cross-talk between signaling pathways
Two distinct signaling pathways can converge on a single functional unit, which may either be a single protein or a complex of proteins. The response is either functionally distinct or synergistic between the two pathways but different from the response...
Protein-protein Interfaces02:04

Protein-protein Interfaces

Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...
Direct Motor Pathways01:11

Direct Motor Pathways

The direct motor pathways, also known as the pyramidal tracts, are a group of neural pathways that originate in the brain and descend through the spinal cord. They control the voluntary movement of the body. There are two major direct motor pathways: the corticospinal and the corticobulbar tracts.
The corticospinal tract is responsible for the voluntary movement of the limbs and trunk. It originates in the cerebral cortex of the brain and descends through the cerebrum's internal capsule and the...

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Updated: Jun 28, 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

ConsensusPathDB--a database for integrating human functional interaction networks.

Atanas Kamburov1, Christoph Wierling, Hans Lehrach

  • 1Max Planck Institute for Molecular Genetics, Ihnestr. 63-73, 14195 Berlin, Germany. kamburov@molgen.mpg.de

Nucleic Acids Research
|October 23, 2008
PubMed
Summary
This summary is machine-generated.

ConsensusPathDB integrates human functional interaction data from over 200 sources into a unified database. This resource aids researchers by providing a comprehensive platform for exploring complex biological networks and pathways.

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A Web Tool for Generating High Quality Machine-readable Biological Pathways
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Mapping Dysfunctional Protein-Protein Interactions in Disease
09:39

Mapping Dysfunctional Protein-Protein Interactions in Disease

Published on: October 24, 2025

Area of Science:

  • Bioinformatics
  • Systems Biology
  • Molecular Biology

Background:

  • Human functional interaction data is fragmented across numerous specialized databases.
  • Disparate data formats and foci hinder comprehensive analysis of biological networks.
  • A unified resource is needed to integrate and access this dispersed information.

Purpose of the Study:

  • To develop and describe ConsensusPathDB, a database system for integrating human functional interactions.
  • To provide a centralized platform for accessing and analyzing diverse biological interaction data.
  • To facilitate research in systems biology and molecular interactions.

Main Methods:

  • Integration of data from 12 distinct interaction databases.
  • Development of a unified database schema to handle heterogeneous data formats.
  • Implementation of a web interface for data querying, visualization, and analysis.

Main Results:

  • ConsensusPathDB integrates 26,133 physical entities and 74,289 functional interactions.
  • The database covers 1738 human pathways.
  • The web interface supports network visualization, manipulation (BioPAX, SBML, PSI-MI), and over-representation analysis.

Conclusions:

  • ConsensusPathDB offers a valuable, integrated resource for studying human functional interactions.
  • The platform enhances biological network analysis through data consolidation and user-friendly tools.
  • Facilitates systems biology research by providing a comprehensive interaction knowledge base.