1. MEDICI Project Update Jayashree Kalpathy-Cramer Karl Helmer, Artem Mamanov Massachusetts General Hospital CTIIP Coordination Call 29 July 2015

2. Image Movement Successful sharing of TCIA Shared List Currently working to resolve issue of incomplete file transfers from TCIA when total file size is large – fixed with help from Ashish Process of integration of app with CodaLab underway – (programmatically) Create project in ePad, create multiple users, parse shared list and ask ePad to download images from TCIA, view segmentations

3. Current Work Ongoing work to create a standalone version of CodaLab - generation of new user accounts in CodaLab, which will be saved for future use Visualization of multiple overlays  ePad group can generate different colored contour lines representing the outer boundary of each annotation - issue with passing the annotations to a remote computer are being resolved.

4. MICCAI 2015 – miccai.cloudapp.net:8000 The Computational Precision Medicine - Brain Tumors (CPMBT) 2015 – Workshop/challenges in conjunction with MICCAI 2015 – Oct 9 in Munich Germany – morning workshop and afternoon sessions on brain tumor imaging and digital pathology data. Workshop: Computational Precision Medicine II Digital Pathology Nuclei Segmentation Challenge Imaging and Digital Pathology Tumor Classification Challenge Guess the Primary from Brain Mets Challenge

5. Current Plan - Implemented MedICI will be used to host the joint rad/path classification challenges and the nuclear segmentation challenge caMicroscope will be used to display the digital pathology data Integration between MedICI and caMicroscope in progress

6. Status 2 nd half of training data has been released – Nuclear segmentation in pathology images image tiles from whole slide tissue images Nuclei in each tile have been manually segmented – Joint radiology pathology classification challenge Classify Low grade glioma cases from TCIA (LGG) into Oligodendroglioma and Astrocytoma Training data consists of “ground truth” classification Data has been de-identified to remove links to TCIA/TCGA names

7. Future Work All three groups are looking into making their capabilities available through Docker containers. File renaming; Remove TCIA ID numbers, study UID, instance UID, etc. from DICOM images so that users can’t “re-identify”. Implementing the entire workflow – put the pieces together.