PMedIC Data Science Retreat and Brainstorming Session Sept. 27

Researchers: Do you need assistance with data analytics? Looking for collaborators on your precision medicine project?

PMedIC was launched earlier this year to augment the research collaboration between OHSU and the U.S. Department of Energy’s Pacific Northwest National Laboratory in Richland, WA. 

The OHSU-PNNL Precision Medicine Co-laboratory (PMedIC) is inviting the research community to a one-day data science retreat and brainstorming session in Hood River, OR, Thursday, Sept. 27.

The goal of the retreat is to bring scientists together who are developing novel analytics and tools and those who are working on precision medicine projects.

“At the retreat, you’ll be able to pitch your work, find collaborators and learn about the advanced analytical capabilities at PNNL,” said Mary Heinricher, Ph.D., associate dean for basic research, OHSU School of Medicine.

If you are interested in attending or want to learn more, please email Aditi Martin, associate director of strategic partnerships, OHSU School of Medicine. Please RSVP by Friday, Aug. 3.

Draft data science retreat agenda

9–9:30 a.m.    Arrival, Registration and Refreshments

9:30–10 a.m.        Overview and opportunity

10–11:10 a.m.     Up to 12 five-minute flash talks – OHSU investigators

11:10–11:20 a.m.          Break

11:20–12:30 p.m. Up to 12 five-minute flash talks – PNNL investigators

12:30–1 p.m.         Working lunch: flashtalks, Q&A

1–2 p.m.                   Parallel work group discussions, including but not limited to,

Identify gaps and challenges

EM/imaging data group and Omics data group

2–2:30 p.m.           Report out from working groups & Discussion

2:30–2:45 p.m.     Break

2:45–4 p.m.             Reform working groups – strategies for solutions

4–4:30 p.m.           Report out from working groups, future directions

The morning sessions will provide an overview of PMedIC and known opportunities aligned with the NIH Strategic Plan for Data Science, which was just released.

The afternoon session will be divided into parallel working groups focused topics such as but not limited to a) machine learning/deep learning applied to imaging data and b) pathway analysis and integration of ‘omics data.

The first afternoon session will focus on identifying challenges and knowledge gaps, followed by a whole group discussion. The second afternoon session will charge the participants with prioritizing no more than two challenges where the combined capabilities of OHSU and PNNL would provide a competitive advantage, and briefly outline, at a high level, approaches to address those challenges.

Update on PMedIC

PMedIC was launched earlier this year to augment the research collaboration between OHSU and the U.S. Department of Energy’s Pacific Northwest National Laboratory in Richland, Wash. PMedIC promotes the collaborative application of innovative analytical technologies in three pillars – data science, imaging and ‘omics analyses – to advance the science and practice of precision medicine.

“Each of the three pillars has formulated an initial leadership team, and there have been substantial early successes in obtaining external funding,” said Karin Rodland, Ph.D., PMedIC co-director, who is a laboratory fellow at PNNL and affiliate professor of cell, developmental and cancer biology, OHSU School of Medicine.

Imaging

PMedIC’s strengths in imaging cover multiple scales, from near atomic resolution structural images (cryoEM), to 3D cellular and subcellular architecture (cyclic IF) to organ systems (CT and MRI).

With the funding of the Pacific Northwest Center for CryoEM, the electron microscopy teams at both OHSU and at PNNL have begun establishing the center and setting a vison for the future of cryoEM at OHSU.

Additional efforts to apply deep learning to the segmentation and quantification of CT images for the analysis of cachexia are in process.

‘Omics

PNNL and OHSU have collaborated in the application of advanced proteomic techniques to biomedical problems for several years.

To expand the scope of proteomic interactions, a workshop was held earlier this year where multiple members of the PNNL ‘omics team presented the latest innovations in mass spectrometry to OHSU faculty interested in ‘omics projects, with an emphasis on CEDAR scientists. OHSU ‘omics faculty attended and presented about OHSU capabilities.