# Cytoscape: A Modeling Platform for Biomolecular Networks

> **NIH NIH R01** · UNIVERSITY OF CALIFORNIA, SAN DIEGO · 2021 · $586,312

## Abstract

CYTOSCAPE: A MODELING PLATFORM FOR BIOMOLECULAR NETWORKS
Administrative supplement request to extend R01 HG009979 for a period of one year (7/1/21 to 6/30/22)
PI: Trey Ideker (University of California San Diego)
Project Summary
Cytoscape is an open source software platform for biological network analysis, visualization and modeling. It is
a critical bioinformatics resource in academia and industry, with 300,000+ downloads per year and 25,000+
citations. Cytoscape has been widely adopted due mainly to its utility in diverse biological analyses, its
sustainable open development model, and its extensible architecture, which enables anyone to add algorithmic
functionality and has attracted hundreds of third-party developers. Access to network analysis tools is
particularly important now, at a time when network knowledge and concepts are increasingly central to
genomics research. Cytoscape addresses this need and serves as a hub for knowledge-based genome
analysis.
Here in this administrative supplement application, we are requesting additional funds to permit a one-year
extension to the budget period of the current grant (R01 HG009979). These bridge funds will enable continued
maintenance and dissemination of the Cytoscape ecosystem of tools while our U24 Genomic Community
Resource application is still under review (U24 HG012107, resubmission May 25, 2021). The requested $586K
in total costs is a reduction from the current award and the base amount required to maintain, support and
incrementally update the widely used Cytoscape platform during the intervening period. These funds will also
serve to retain our highly specialized Cytoscape development team.
With this one-year supplemental funding request, we propose to:
1. Continue our longtime commitment to maintain, update and distribute the Cytoscape ecosystem of tools.
2. Further develop a web- and cloud-based version of Cytoscape, Cytoscape Explore, and release v1.0 with
 basic Cytoscape Desktop functionality.
3. Continue our rich set of Cytoscape outreach and training programs.

## Key facts

- **NIH application ID:** 10415596
- **Project number:** 3R01HG009979-17S2
- **Recipient organization:** UNIVERSITY OF CALIFORNIA, SAN DIEGO
- **Principal Investigator:** Trey Ideker
- **Activity code:** R01 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2021
- **Award amount:** $586,312
- **Award type:** 3
- **Project period:** 2021-09-15 → 2022-08-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10415596

## Citation

> US National Institutes of Health, RePORTER application 10415596, Cytoscape: A Modeling Platform for Biomolecular Networks (3R01HG009979-17S2). Retrieved via AI Analytics 2026-05-22 from https://api.ai-analytics.org/grant/nih/10415596. Licensed CC0.

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