Help create a nudibranch brain connectome
Just as a genome is all of the genes that an organism has, a brain connectome is all of the synaptic connections that a brain has. We are determining the connectome of the brain from a nudibranch mollusc, called Berghia stephanieae. We are collaborating with Jeff Lichtman's lab at Harvard University. Together, we have taken part of the brain, called the rhinophore ganglion, and cut it into slices that are only 30 nanometers thick. Thousands of these ultrathin sections were imaged at 4nm resolution using an electron microscope. The images were then stitched together and aligned so that neurons can be traced from one section to the next. See this example from a mammalian brain (https://www.microns-explorer.org/cortical-mm3). This process is called segmentation.
Now comes the part where we need your help. We need you to segment individual neurons through this stack of images to find out where they connect. You will use specialized software called VAST (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6198149/). This will build virtual 3D models of individual neurons from the stack of 2D images.
The work is tedious; you will be coloring in images. You need to devote blocks of time to the task.
In your essay, please indicate why you are interested in this opportunity. Also share an example of when you devoted time to careful detailed work.
This project will provide an opportunity to work with cutting-edge, high-resolution electron microscopy dataset. The connectomics approach has been gaining importance in neuroscience research. This work experience will you an opportunity to gain a deeper understanding of how connectomes are generated and give them an edge when applying for future research opportunities in neuroscience. You will be part of the dynamic and fun Katz lab, which includes 3 postdocs, 3 PhD students, and several undergraduates. You will be supervised by a Masters student, Alex Cook, and a postdoc, Harshada Sant, who have been working directly with the Lichtman Lab. Your work will help us determine if molluscan brains have similar circuit motifs to our own brains even if they look different.