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A CellProfiler Approach to Analyzing Tissue Data

Blog: October 01, 2019
Kyle Karhohs Imaging tissue slices provides a wealth of data about the spatial composition and number of the various cell types that make up a tissue. Interactions among cells within a tissue are crucial to understanding the role of the inflammation that is triggered by the invasion of cancerous...

Data Sharing

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Collaborators are expected to provide high­ quality, appropriately consented DNA samples from patients and family members. The consent form signed by subjects must include language regarding secondary use, data sharing, and deposition into controlled access databases. Matchmaker Exchange The...

Sequencing

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Accepted samples are sequenced at the Broad’s Genomics Platform. After sequencing and processing completes, our project management team will send a notification and reminder to enter in phenotype information. This will be a required step before data can be loaded onto our seqr platform. Once data is...

When To Say ‘Good Enough’

Blog: October 21, 2019
Beth Cimini One of the most common questions I’m asked when helping a collaborator with an image analysis project is: “How do I know when my analysis workflow is doing well enough at finding the objects or measuring the things I care about?” Unfortunately, it’s also one of the hardest questions to...

Phenotype Submission

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You will be provided a login for our secure online analysis portal, seqr. Each individual sequenced will have a phenotype record within seqr, and for each affected individual, it is required to be filled in by the collaborator before sequencing data can be loaded onto seqr. We use the Human...