teaching

Teaching and Seminars

PATCH Lab members are passionate about teaching. We teach two full-semester courses and contribute to various teaching activities at Penn and more broadly.

Formal Courses

  • Biomedical Image Analysis (BE 5370): This course, taught by Paul Yushkevich with contributions from PATCH Lab Ph.D. students, covers the fundamentals of advanced quantitative image analysis that apply to all of the major and emerging modalities in biological/biomaterials imaging and in vivo biomedical imaging. While traditional image processing techniques will be discussed to provide context, the emphasis will be on cutting edge aspects of all areas of image analysis (including registration, segmentation, and high-dimensional statistical analysis). Significant coverage of state-of-the-art biomedical research and clinical applications will be incorporated to reinforce the theoretical basis of the analysis methods. (syllabus).

  • Current Alzheimer’s Disease and Related Dementia Concepts (NGG 5500): This foundation course, co-taught by Drs. Corey McMillan and David Wolk, will provide an important foundation in the clinical and biological concepts and cutting-edge research topics on Alzheimer’s disease and related dementias (ADRD). The course will survey clinico-path correlations, biomarkers, genomics, basic science, and translational drug discovery. Each week there will be ~3 hour session that will include a one hour guest lecturer presentation on a designated topic (e.g., neuroimaging biomarkers) that will ideally cover some RCR/SRR content (e.g., biomarker disclosure, incidental findings). There will then be two student led journal article discussions with one reflecting foundational evidence (e.g. first PET amyloid paper) and another recent state-of-the-art evidence (e.g., amyloid PET evidence of anti-amyloid clearance). (syllabus)

Seminars

  • PICSL/PATCH Image Analysis Methods Seminar: Held most Wednesdays at 10am in Richards D601, this seminar is organized a journal club covering emerging topics and conference papers, as well as a forum for brainstorming ideas. Current organizer: Zahra Khodakarami.

  • Neuroimaging in Neurodegeneration (NIND) Journal Club: Held alternating Wednesdays at 2pm in Richards D601, this journal club reviews both clinical and methodological papers involving ADRD biomarkers and neuroimaging. Current organizer: Sandhitsu Das.

Other Contributions

  • A tour of biomedical image segmentation using deep learning: Alum Pulkit Khandelwal was a finalist in the MICCAI 2023 Educational Challenge with this entry that covered the fundamentals of medical image segmentation exploring both introductory and advanced concepts and covering a large collection of recent papers.