Polyethnic 1000

Polyethnic-1000: A New York Genome Center Cancer Group initiative to advance cancer genomics by studying ethnically diverse, underserved patient populations in New York

Fieke Froeling1,2, Benjamin Hubert1, Nicolas Robine1 and David Tuveson1,2
Representing the Genome Center Cancer Group at the New York Genome Center

Co-chairs: Harold Varmus1,3 and Charles Sawyers1,4
1 New York Genome Center; 2 Cold Spring Harbor Laboratory, 3 Weill Cornell Medicine; 4 Memorial Sloan Kettering Cancer

POLYETHNIC-1000 VISION

In a new collaborative effort organized by the New York Genome Center (NYGC), leaders of the New York City cancer research community have joined together to advance cancer genomics and its practice in clinical care by leveraging the City’s famously large and diverse population. The vision of this project, called Polyethnic-1000, is to deepen our understanding of the contributions ethnicities make to the incidence and behavior of cancers, thereby improving outcomes for many patients, especially those who currently lack access to the most recent advances in medical science. This will be achieved by bringing genomic innovation to patient populations generally under-represented in research and hence deprived of the benefits of scientific progress.

BACKGROUND

Recent advances in DNA sequencing technologies have revolutionized approaches to the prevention, risk assessment, early detection, diagnosis, and treatment of cancers. However, many ethnic groups, especially non-European minorities, have been significantly under-represented in cancer research, including clinical trials, and have not received equal benefits in clinical practice. As a result, our current knowledge about tumor biology, cancer risk, and response to treatment has primarily been derived from patients of European descent. These inequities limit our understanding of the many types of cancer and may exacerbate health disparities in the United States. In this proposal, we address both the scientific and social issues by creating a dynamic research platform within the greater New York area that promises to enhance the ways in which cancer is prevented, diagnosed, and treated. Polyethnic-1000 will establish a framework to enhance interactions among our region’s academic and health centers to advance cancer genomics. These efforts should improve and widen the use of genomics for all, especially currently underserved ethnic minority populations.
 

Proposal

The overall purpose of Polyethnic-1000 is to study the genomic landscapes of cancer in the ethnically diverse New York City population. The project is envisioned to occur in three stages.

 

The first stage entails a relatively small retrospective genomic study of about one hundred available tissue samples with the objectives to:

  1. Develop the required infrastructure for a prospective study with strong connections between academic centers, partner hospitals, and the NYGC.
  2. 2. Document an effective pipeline to sequence and analyze tumor DNA and RNA at the NYGC.

 

The second stage will consist of a prospective study of moderate size to test the established pipeline and infrastructure, specifically, aiming to:

  1. Define whether the established framework developed in Stage I is adequate for prospective sample collection with sequencing and processing of germline and somatic DNA, as well as tumor RNA.
  2. Develop a database of information about ethnically diverse populations that can serve as a starting point for developing hypotheses.
  3. Expand the study population to reach our goal of a minimum of 1000 ethnically diverse patients with germline and tumor genomic data and pre-defined clinical data.

 

In the third stage, the research infrastructure firmly established in the first two stages will be used to support selected studies with adequate statistical power to answer specific research questions about cancer in ethnically diverse populations. The aims of stage III are to:

  1. Investigate specific research questions from selected research proposals, with a variety of current or newly developed genomic methods (whole-exome, whole-genome, single-cell RNAseq, or others).
  2. Integrate polyethnic genomic information with established cancer genome projects that are being conducted in the US and at international sites that are committed to data sharing.

 

About the New York Genome Center Cancer Group and the NYGC

The Genome Center Cancer Group (GCCG) is composed of clinicians and cancer researchers representing most of the NYGC member institutions, including all of New York City’s NCI-Designated Cancer Centers and other renowned academic and medical institutions and industries. It meets monthly and is chaired by Drs. Harold Varmus and Charles Sawyers. Polyethnic-1000 will build on the extensive expertise available at the NYGC, with its well-established sequencing and analysis pipelines, to expand these services to the wider NY community. Hospitals serving large populations of ethnic minority patients have been and will be approached to join Polyethnic-1000; these institutions include hospitals affiliated with NYGC’s Institutional Founding Members (IFMs) and unaffiliated hospitals, as well as major academic health centers.

For more information on the NYGC and full list of member institutions, please visit http://www.nygenome.org.

 

Contact information:

Benjamin Hubert, PhD, collaboration manager, New York Genome Center

101 Avenue of the Americas

New York, NY 10013

Office: (646) 977-7118, Cell: (551) 208-2046

bhubert@nygenome.org