# Durable Common Fund Data Interfaces and Tutorials with Bioconductor

> **NIH NIH R03** · BRIGHAM AND WOMEN'S HOSPITAL · 2021 · $377,050

## Abstract

Project Summary
The NIH Common Fund Data Ecosystem collects together a dozen data-rich projects producing high-
throughput data with cutting-edge assays. The overall ecosystem design includes plans for cross-project data
harvesting and analysis on a collaborative cloud computing platform. While a long-range plan may culminate
in highly structured analytic workbenches, we propose to use approaches established in the Bioconductor
project to design community-driven modular approaches to data structure and interactive analysis of selected
Common Fund assets. Our first aim is to produce standard, easy to use interfaces to resources provided in
the 4D Nucleome, Illuminating the Druggable Genome, and Genotype-Tissue Expression projects. These
Common Fund projects provide data of considerable interest by the general research community, but data
discovery and use is hampered by intrinsic complexity as well as differing access and delivery methods
adopted by the various Common Fund projects. We will interface well-established data containers and query
methods to allow familiar R/Bioconductor programming idioms to work smoothly with resources from the
selected Common Fund projects. The two-decade history of Bioconductor's approach to modular software
design, documentation, integration, and distribution will sharply increase the likelihood of durable improvement
in access to and utilization of Common Fund Assets. Our second aim is to leverage the new interfaces and
containers to carry out four analytical projects in the investigation of origins of treatment persistent tumor cells
in organoid cultures, with the objective of identifying compounds that can attenuate and provide insights into
epigenetic mechanisms of treatment persistence. The operational and substantive outcomes of this project will
form the basis of a comprehensive, highly community-driven approach to building strong bridges between
consortia innovating at the cutting edge of biotechnology, and scientists innovating in integrative translational
inference based on genome biology.

## Key facts

- **NIH application ID:** 10356362
- **Project number:** 1R03OD032629-01
- **Recipient organization:** BRIGHAM AND WOMEN'S HOSPITAL
- **Principal Investigator:** VINCENT JAMES CAREY
- **Activity code:** R03 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2021
- **Award amount:** $377,050
- **Award type:** 1
- **Project period:** 2021-09-22 → 2023-09-21

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10356362

## Citation

> US National Institutes of Health, RePORTER application 10356362, Durable Common Fund Data Interfaces and Tutorials with Bioconductor (1R03OD032629-01). Retrieved via AI Analytics 2026-05-23 from https://api.ai-analytics.org/grant/nih/10356362. Licensed CC0.

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