Comprehensive Proteomics Metadata and Integrative Web Portals Facilitate Sharing and Integration of LINCS Multiomics...

Area of Science:

• Cellular Biology
• Proteomics
• Systems Biology

Background:

• The Library of Integrated Network-based Cellular Signatures (LINCS) program investigates cellular responses to diverse perturbing agents.
• Proteins and their modifications are crucial for understanding cellular phenotypes.
• Previous LINCS efforts have generated extensive data on cellular function and molecular activity.

Purpose of the Study:

• To describe the proteomics efforts within the LINCS program.
• To detail the data harmonization and integration of LINCS proteomics data.
• To provide a cohesive overview of proteomic analyses in response to cellular perturbations.

Main Methods:

• Cataloging and analyzing cellular function and molecular activity profiles.
• Employing significant proteomics efforts across four LINCS centers.
• Developing methods for data harmonization and integration of proteomic datasets.

Main Results:

• Characterization of cellular phenotypes in response to >80,000 perturbing agents.
• Generation of comprehensive proteomic profiles linked to cellular responses.
• Successful integration of diverse proteomic data for network-based analysis.

Conclusions:

• Proteomics is integral to understanding cellular responses within the LINCS program.
• Harmonized and integrated proteomics data enhance the analysis of cellular perturbations.
• The LINCS proteomics effort provides a valuable resource for systems biology research.