Gayathri Mahalingam, Ph.D.
Scientist III
Gayathri Mahalingam joined the Allen Institute in 2017 as a Scientist in the Neural Coding department. She works with the Network Anatomy group in its efforts to generate peta scale datasets with a goal of mapping the wiring diagram of the mouse neocortex and its functional connectivity. Gayathri graduated with a Ph.D. in Computer Science from the University of Delaware with specializations in the field of Computer Vision and Machine Learning, and Biometrics. She worked as a Post-Doctoral fellow at the Institute of Interdisciplinary Sciences in Identity Sciences at the University of North Carolina, Wilmington before joining the Institute.
Research
Research Interests
As a member of the Network Anatomy group, Gayathri has worked in the stitching and alignment of Peta-scale datasets comprising the cubic mm of the mouse neocortex. She has developed tools for linear and elastic registration and 3D alignment optimized for large scale datasets. She has also developed machine learning based tools to handle anomalies in these datasets. She is also interested in developing tools that aid data analysis that helps in some interesting biological findings on the functionality of the mouse brain.
Expertise
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Computer Vision
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Machine Learning
Research Programs
- Neural Coding
Selected Publications
A scalable and modular automated pipeline for stitching of large electron microscopy datasets
eLife
July 26, 2022
Mahalingam G, Torres R, Kapner D, Trautman ET, Fliss T, Seshamani S, Perlman E, Young R, Kinn S, Buchanan J, Takeno MM, Yin W, Bumbarger DJ, Gwinn RP, Nyhus J, Lein E, Smith SJ, Reid RC, Khairy KA, Saalfeld S, Collman F, Macarico da Costa N
Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity
Cell
March 17, 2022
Turner NL, Macrina T, Bae JA, Yang R, Wilson AM, Schneider-Mizell C, Lee K, Lu R, Wu J, Bodor AL, Bleckert AA, Brittain D, Froudarakis E, Dorkenwald S, Collman F, Kemnitz N, Ih D, Silversmith WM, Zung J, Zlateski A, Tartavull I, Yu SC, Popovych S, Mu S, Wong W, Jordan CS, Castro M, Buchanan J, Bumbarger DJ, Takeno M, Torres R, Mahalingam G, Elabbady L, Li Y, Cobos E, Zhou P, Suckow S, Becker L, Paninski L, Polleux F, Reimer J, Tolias AS, Reid RC, da Costa NM, Seung HS
Structure and function of axo-axonic inhibition
eLife
December 1, 2021
Schneider-Mizell CM, Bodor AL, Collman F, Brittain D, Bleckert A, Dorkenwald S, Turner NL, Macrina T, Lee K, Lu R, Wu J, Zhuang J, Nandi A, Hu B, Buchanan J, Takeno MM, Torres R, Mahalingam G, Bumbarger DJ, Li Y, Chartrand T, Kemnitz N, Silversmith WM, Ih D, Zung J, Zlateski A, Tartavull I, Popovych S, Wong W, Castro M, Jordan CS, Froudarakis E, Becker L, Suckow S, Reimer J, Tolias AS, Anastassiou CA, Seung HS, Reid RC, da Costa NM
Nature Communications
October 2, 2020
Yin W, Brittain D, Borseth J, Scott ME, Williams D, Perkins J, Own CS, Murfitt M, Torres RM, Kapner D, Mahalingam G, Bleckert A, Castelli D, Reid D, Lee WA, Graham BJ, Takeno M, Bumbarger DJ, Farrell C, Reid RC, da Costa NM