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Protein Networks02:26

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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.
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Proteins are dynamic macromolecules that carry out a wide variety of essential processes; however, the activities of most proteins depend on their interactions with other molecules or ions, known as ligands.
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Econometric Views, often stylized as EViews, is a package that merges statistical analysis with econometric studies. It is designed to provide tools for time series analysis, forecasting, and econometric model simulation. The software originated from MicroTSP software and has evolved significantly since its inception in 1981. The history of EViews is marked by a continuous effort to enhance its computational speed and user interface. It was initially developed for large computing systems but...
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Searching, viewing, and visualizing data in the Biomolecular Interaction Network Database (BIND).

Randall C Willis1, Christopher W V Hogue1

  • 1The Blueprint Initiative, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario, Canada.

Current Protocols in Bioinformatics
|April 23, 2008
PubMed
Summary
This summary is machine-generated.

The Biomolecular Interaction Network Database (BIND) offers a mature data format for molecular interactions and pathways. It supports data sharing and visualization, enhancing biomolecular research accessibility.

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Area of Science:

  • Biochemistry
  • Bioinformatics
  • Molecular Biology

Background:

  • The Biomolecular Interaction Network Database (BIND) is a comprehensive resource for molecular interaction data.
  • BIND's data model was the first to undergo peer review before development, establishing a mature standard.
  • It integrates diverse data types including molecular interactions, chemical reactions, and structural interfaces.

Purpose of the Study:

  • To present the Biomolecular Interaction Network Database (BIND) as a mature standard for molecular interaction data.
  • To highlight BIND's capabilities in data integration, compatibility, and accessibility for researchers.
  • To detail the functionalities for searching, viewing, exporting, and visualizing data within BIND.

Main Methods:

  • Data compilation from peer-reviewed literature and direct submissions.
  • Development of a mature, peer-reviewed data model for biomolecular interactions.
  • Implementation of compatibility with other database efforts, including HUPO PSI Level 2.
  • Utilizing Java Enterprise Systems for software construction with over 2000 metadata fields.

Main Results:

  • BIND provides a standardized format for molecular interactions, chemical reactions, and structural interfaces.
  • The database supports compatibility with other efforts through additional file formats.
  • BIND offers robust protocols for internet-based searching, data viewing, and export.
  • Protocols for visualizing biomolecular interactions within BIND and transferring data to tools like Cytoscape and Cn3D are available.

Conclusions:

  • BIND serves as a vital, mature resource for curated biomolecular interaction data.
  • Its comprehensive data model and compatibility features facilitate data sharing and integration.
  • BIND enhances biomolecular research through accessible data retrieval and visualization tools.