Educational Resources

Courses and Seminars

One of our major goals within the Microscopy CoRE is to create an “imaging” culture that contributes towards the development of new state-of-the-art imaging technologies within the Icahn School of Medicine at Mount Sinai.

Imaging Seminars and Workshops

Each month (usually on the third Thursday) invited speakers give seminars relevant to imaging. Topics include both biology-driven presentations where speakers use imaging as a major tool in their research and presentations from companies that have resources relevant for Mount Sinai’s researchers; and range from probe development to new microscopes and imaging analysis technology. In addition to this series, we offer workshops on focused topics for the community and sponsor equipment demonstrations throughout the year.

Light Microscopy Course

In June 2016 we offered a three-day symposium with lectures from leaders in the field and hands-on sessions focused on different imaging techniques and applications ranging from: wide field-imaging, confocal microscopy, FRET and FRAP to in vivo imaging. The course was developed jointly with Leica Microsystems, which supported hands-on sessions using new equipment brought to the School for the event.

In Spring 2018, we offered a 3-credit course, “Fundamentals of Microscopy” to Mount Sinai’s graduate students. The course was directed by Dr. Evren Azeloglu and covered basic concepts in optical, electron, and scanning probe microscopy. Topics covered theory and applications and included hands on labs.

Educational Resources

The following are valuable microscopy and image analysis resources

BisQue: Open source and cloud-based image analysis

CellProfiler: Image analysis designed for biologists

Fiji: ImageJ with pre-installed utilities and upgrade management

GIMP: GNU image manipulation program

Icy: Open source platform for Bioimaging Informatics

I do Imaging: A repository of medical imaging applications

Ilastik: Open source image classification, segmentation and analysis tool

ImageJ: NIH image analysis software


NITRC: Neuroinformatics  resource center

OMERO: The Open Microscopy Environment