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Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
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RAMP: a bioinformatics framework for researching imaging agents through molecular pathways.

Edward Khokhlovich1, Daniel Wahl, Anthony Masiello

  • 1Novartis Institutes for Biomedical Research, Biomarker Development, Cambridge, MA 02139, USA. edward.khokhlovich@novartis.com

Molecular Imaging
|January 26, 2013
PubMed
Summary
This summary is machine-generated.

RAMP is a new bioinformatics framework connecting cellular signaling pathways and molecular imaging probes. This tool aids in designing and selecting probes for specific pathways, enhancing molecular imaging research.

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Area of Science:

  • Bioinformatics
  • Molecular Imaging
  • Cellular Biology

Background:

  • Cellular communication relies on signaling pathways, but analyzing molecular imaging probes within this context is challenging.
  • Existing frameworks lack the ability to systematically link imaging probes to specific signaling pathways.

Purpose of the Study:

  • To introduce RAMP (Researching imaging Agents through Molecular Pathways), a bioinformatics framework for connecting signaling pathways and molecular imaging probes.
  • To facilitate the design and selection of imaging probes for targeted signaling pathway analysis.
  • To enable the identification of signaling pathways interrogated by specific imaging probes.

Main Methods:

  • RAMP integrates signaling pathway data from MetaCore, KEGG, and Gene Ontology.
  • It incorporates imaging probe data from the Molecular Imaging and Contrast Agent Database (MICAD).
  • Tissue protein expression data from The Human Protein Atlas is also included.

Main Results:

  • The RAMP framework provides a structured approach to link imaging targets with relevant signaling pathways.
  • A user-friendly search tool is available at http://www.rampsearch.com.
  • Demonstrated utility of RAMP for pathway-based molecular imaging probe discovery.

Conclusions:

  • RAMP offers a valuable bioinformatics solution for the analysis and design of molecular imaging probes.
  • It bridges the gap between signaling pathway research and molecular imaging applications.
  • The framework supports more informed probe selection and pathway interrogation in biological research.