no code implementations • 19 Apr 2024 • Shixuan Gu, Jason Ken Adhinarta, Mikhail Bessmeltsev, Jiancheng Yang, Jessica Zhang, Daniel Berger, Jeff W. Lichtman, Hanspeter Pfister, Donglai Wei
In this work, we propose FreSeg, a framework of part segmentation tasks for 3D curvilinear structures.
no code implementations • 14 May 2021 • Felix Gonda, Xueying Wang, Johanna Beyer, Markus Hadwiger, Jeff W. Lichtman, Hanspeter Pfister
A connectivity graph of neurons at the resolution of single synapses provides scientists with a tool for understanding the nervous system in health and disease.
1 code implementation • 7 Jan 2021 • Lu Mi, Hao Wang, Yaron Meirovitch, Richard Schalek, Srinivas C. Turaga, Jeff W. Lichtman, Aravinthan D. T. Samuel, Nir Shavit
Single-beam scanning electron microscopes (SEM) are widely used to acquire massive data sets for biomedical study, material analysis, and fabrication inspection.
1 code implementation • 27 Sep 2019 • Abhimanyu Talwar, Zudi Lin, Donglai Wei, Yuesong Wu, Bowen Zheng, Jinglin Zhao, Won-Dong Jang, Xueying Wang, Jeff W. Lichtman, Hanspeter Pfister
Next, we develop nomenclature rules for pyramidal neurons and mitochondria from the reduced graph and finally learn the feature embedding for shape manipulation.
1 code implementation • 8 Jul 2018 • Toufiq Parag, Daniel Berger, Lee Kamentsky, Benedikt Staffler, Donglai Wei, Moritz Helmstaedter, Jeff W. Lichtman, Hanspeter Pfister
The few methods that computes direction along with contact location have only been demonstrated to work on either dyadic (most common in vertebrate brain) or polyadic (found in fruit fly brain) synapses, but not on both types.
no code implementations • 27 Jul 2017 • Toufiq Parag, Fabian Tschopp, William Grisaitis, Srinivas C. Turaga, Xuewen Zhang, Brian Matejek, Lee Kamentsky, Jeff W. Lichtman, Hanspeter Pfister
The field of connectomics has recently produced neuron wiring diagrams from relatively large brain regions from multiple animals.
no code implementations • 30 May 2017 • David Rolnick, Yaron Meirovitch, Toufiq Parag, Hanspeter Pfister, Viren Jain, Jeff W. Lichtman, Edward S. Boyden, Nir Shavit
Deep learning algorithms for connectomics rely upon localized classification, rather than overall morphology.
no code implementations • CVPR 2018 • Daniel Haehn, Verena Kaynig, James Tompkin, Jeff W. Lichtman, Hanspeter Pfister
Automatic cell image segmentation methods in connectomics produce merge and split errors, which require correction through proofreading.
no code implementations • 14 Dec 2016 • Arthur W. Wetzel, Jennifer Bakal, Markus Dittrich, David G. C. Hildebrand, Josh L. Morgan, Jeff W. Lichtman
The detailed reconstruction of neural anatomy for connectomics studies requires a combination of resolution and large three-dimensional data capture provided by serial section electron microscopy (ssEM).
no code implementations • 21 Nov 2016 • Seymour Knowles-Barley, Verena Kaynig, Thouis Ray Jones, Alyssa Wilson, Joshua Morgan, Dongil Lee, Daniel Berger, Narayanan Kasthuri, Jeff W. Lichtman, Hanspeter Pfister
The best segmentation results obtained gave $V^\text{Info}_\text{F-score}$ scores of 0. 9054 and 09182 for the cortex datasets, 0. 9438 for LGN, and 0. 9150 for Cerebellum.
no code implementations • 16 Apr 2014 • Ayushi Sinha, William Gray Roncal, Narayanan Kasthuri, Ming Chuang, Priya Manavalan, Dean M. Kleissas, Joshua T. Vogelstein, R. Jacob Vogelstein, Randal Burns, Jeff W. Lichtman, Michael Kazhdan
The contribution of this work is the introduction of a straightforward and robust pipeline which annotates axoplasmic reticula with high precision, contributing towards advancements in automatic feature annotations in neural EM data.
no code implementations • 16 Apr 2014 • Ayushi Sinha, William Gray Roncal, Narayanan Kasthuri, Jeff W. Lichtman, Randal Burns, Michael Kazhdan
Accurately estimating the wiring diagram of a brain, known as a connectome, at an ultrastructure level is an open research problem.