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Cancer Data Science Shared Resource (CDS-SR)

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ITCR Training Network Event

Erik Roys, CDS-SR Program Manager

April 9, 2025

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Mission

Provide high-level of analytical support and collaboration to Rogel Cancer Center investigators across the spectrum of basic, clinical, and population sciences research

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Aims

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To support ongoing and developing research projects and grant applications by providing collaboration, consultation, and quantitative resources.

Aim 1

To enhance the quality of Rogel research through development of effective, appropriate, and state-of-the-art statistical, bioinformatics, and clinical informatics methods and computational tools.

Aim 2

To contribute to research rigor and reproducibility of scientific endeavors at Rogel; serve on major committees that provide review, monitoring, and oversight of clinical and prevention research protocols.

Aim 3

To provide education and training to Rogel investigators and cancer researchers, and informal training and continuing education to CDS-SR staff.

Aim 4

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Cancer Data Sciences Leadership

Erik Roys, MS

Program Manager

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Veera Baladandayuthapani, PhD Director

Gen Li, PhD

Co-Director

Bioinformatics and Laboratory Sciences

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Menggang Yu, PhD

Co-Director

Clinical and Population Sciences

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CDS: Organizational Structure�

15 Faculty across multiple departments (mostly Depts. of Biostatistics & Computational Medicine and Bioinformatics)

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10 PhD and MS-level staff aligned to different research programs

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Veera Baladandayuthapani

Director

Clinical Informatics

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Faculty

D. Hanauer

Bioinformatics

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Faculty

H. Jiang, Y. Zhao, A. Rao

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Staff Bioinformaticians

K. Bedi, N. Lesniak, S. The,

G. Lam

Biostatistics

Faculty

M. Banerjee, P. Boonstra, N. Henderson, M. Schipper, J. Taylor, A. Tsodikov, J. Rice, K. Suresh

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Staff Biostatisticians

P. Abrahamse, E. Bellile,

I. Bondarenko,

A. Furgal, K. Griffith, C. Perera

Gen Li

Co-Director

Bioinformatics and Laboratory Sciences

Erik Roys

Program Manager

Lauren Detzler

Program Assistant

Menggang Yu

Co-Director

Clinical and Population Sciences

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Cancer Data Science: Biostatistics Faculty�

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Cancer Data Science: Staff

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Study Design and Analysis

  • Clinical trials design, data processing, and analytic support
  • Bioinformatics (genomic, transcriptomic, epigenomic, proteomic and single cell sequencing)
  • Epidemiologic studies
  • Biomarker studies (discovery, analysis, validation)
  • Health services research (registry data and analysis)
  • Clinical informatics (Observational, EHR, EMR data)

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Statistical programming and computing

  • Shiny apps and database development
  • Support for major statistical and bioinformatics software
  • Access to high performance computing and database management
  • Bioinformatics pipelines for reproducible analyses

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Long-term collaborations with Rogel Cancer Center members encouraged

Analyses requiring <200 hrs can also be conducted under recharge

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Services

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Recharge Rates

  • Recharge rates are approved as of January 2025
  • $110/hr will apply to projects that are <10% effort or <200hrs
  • Subject to approval, availability, and initial consultation

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CDS supplemental funding

Additional funds are available for the Cancer Data Science Shared Resource (CDS-SR). If interested, prior to submission of your application, investigators must consult with CDS-SR to determine the level of support needed for the project, which may require:

1) No additional support�2) Moderate support ($5,000)�3) Full support ($10,000)

Once the level is determined, the CDS-SR will provide a Letter of Support (LOS) to be submitted with the application.

Funds will be allocated to the CDS-SR for internal use in personnel effort, computing, and/or data management needs of the project.�

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  • Growing team – welcoming a new staff member in Jan 2025; potential new faculty collaborators from biostat and Department of Computation Medicine and Bioinformatics (DCMB)

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  • Staff support from Cancer Genetics (CG) program and Signaling & Tumor Microenvironment (STME)

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  • Ongoing pipeline development -- standardized pipelines for a variety of biomedical datasets, including single cell data, Bulk RNAseq, WES/WGS, ChIPseq, Multiplex Imaging in Immunohistochemistry (IHC), and metagenomic sequencing data 

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  • Data management and software development – consolidating and curating public data sources; maintaining local databases; developing Shiny apps for broader dissemination

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�BIOINFORMATICS INFRASTRUCTURE

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Education and Training

Webinar series launched in Sept 2020 focused on presenting case-studies, using in-house data and analytic resources, to showcase the partnership between quantitative data scientists and cancer researchers.

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Includes both external and internal speakers (CDS linkages)

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Recordings available on the Cancer Data Sciences Website Events Page:

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https://sph.umich.edu/cds/events.html

AI for Radiology and Digital Pathology Workflows

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May 7, 2025 • 10:00a -12:00p

SPHI, Room G850

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Arvind Rao, Ph.D.

Professor, Biostatistics

Professor, Computational Medicine and Bioinformatics

Professor, Radiation Oncology

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CONTACT:

Lauren Detzler

laurenke@umich.edu

                                                          

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Thank You!

https://sph.umich.edu/cds

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