Wake Forest - LINCS Center: itNETZ

LINCS NIH U01 grant: 1 U01 HL111560-01

Title: itNETZ: The Integrative and Translational Network-Based Cellular Signature Analyzer

Download the softwares: CellIA, pLINDAW.

TMHRI - itNETZ Link: 

Abstract:

There is an urgent need to develop systematic platforms to address the challenges and opportunities introduced by the rapid progress of the Library of Integrated Network-Based Cellular Signatures (LINCS) program. The LINCS program performs cross-cutting high-throughput assays and integrative computational analysis of informative molecular activity and cellular feature signatures generated in response to a variety of agents and drug candidates.

The primary goal of the proposed study is to develop a signature-oriented software platform, the Integrative and Translational Network-based Cellular Signature Analyzer (itNETZ). The work flow of the system is: 1) to identify disease- and drug-specific molecular and cellular features, 2) to reveal the mechanismistic associations between components of such features and delineate them as signaling and regulating networks, 3) to present the dynamics of such networks by mathematical models, 4) to construct network-based molecular and cellular signatures, 5) to discover common signatures and networks across cell lines and diseases, 6) to establish and maintain a public resource of the increasing resultant knowledge of therapeutic responses, and 7) to facilitate the research community on querying signatures of interests, exploring correlations among signatures, and generating hypotheses.

This system will enable the following functions: first, the basic analysis and discovery toolkits for processing cellular images, Luminex genomics data, transcriptome sequencing data, and for modeling phosphoproteins signaling pathway; and second, data integration and mining toolkits for mapping genomics and proteomics to cellular phenotypes, for core pathway signature identification on cell lines treated by different inhibitors and drug-induced pathway signature alterations, and for constructing drug kinome landscapes. The itNETZ system comprises pipelines that load input, analyze images, process genomics and proteomics data, export outputs into a relational database, integrate and mine the data, and generate network-based cellular signatures ofinterest. XML-based protocols will be used for data exchanging.

The itNETZ system comprises pipelines that load input, analyze images, process genomics and proteomics data, export outputs into a relational database, integrate and mine the data, and generate network-based cellular signatures ofinterest. XML-based protocols will be used for data exchanging.