Automated dense neuronal fiber tracing and connectivity mapping at cellular level

Laura J. Brattain, Brian A. Telfer, Siddharth Samsi, Taeyun Ku, Heejin Choi, Kwanghun Chung

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

With the advancement of high throughput and high resolution volumetric brain imaging, there is an unmet need to trace dense neuron fibers and study long-range neuron connectivity. An initial pipeline is described for processing cellular-level neuronal fiber data acquired by a new super resolution imaging method called Magnified Analysis of the Proteome (MAP). First, a multiscale vessel enhancement filter is applied to segment fibers of different diameters. Morphological operations are then employed to extract the fiber centerlines, from which a 3D connectivity map is computed. Applying this approach to an initial data set yielded 2% equal error rate for segmentation and 92% accuracy for end-to-end fiber tracing (22 out of 24 hand-traced fibers). Future work calls for scaling up the algorithm to process much larger brain datasets (terabytes and above) and performing graph-based long-range connectivity analysis. This work has the potential to extend our knowledge on brain networks at the cellular level.

Original languageEnglish
Title of host publication2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017
PublisherIEEE Computer Society
Pages332-336
Number of pages5
ISBN (Electronic)9781509011711
DOIs
Publication statusPublished - 2017 Jun 15
Event14th IEEE International Symposium on Biomedical Imaging, ISBI 2017 - Melbourne, Australia
Duration: 2017 Apr 182017 Apr 21

Publication series

NameProceedings - International Symposium on Biomedical Imaging
ISSN (Print)1945-7928
ISSN (Electronic)1945-8452

Other

Other14th IEEE International Symposium on Biomedical Imaging, ISBI 2017
CountryAustralia
CityMelbourne
Period17/4/1817/4/21

Fingerprint

Neurons
Fibers
Brain
Proteome
Neuroimaging
Hand
Imaging techniques
Datasets
Pipelines
Throughput
Proteins
Processing

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering
  • Radiology Nuclear Medicine and imaging

Cite this

Brattain, L. J., Telfer, B. A., Samsi, S., Ku, T., Choi, H., & Chung, K. (2017). Automated dense neuronal fiber tracing and connectivity mapping at cellular level. In 2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017 (pp. 332-336). [7950531] (Proceedings - International Symposium on Biomedical Imaging). IEEE Computer Society. https://doi.org/10.1109/ISBI.2017.7950531
Brattain, Laura J. ; Telfer, Brian A. ; Samsi, Siddharth ; Ku, Taeyun ; Choi, Heejin ; Chung, Kwanghun. / Automated dense neuronal fiber tracing and connectivity mapping at cellular level. 2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017. IEEE Computer Society, 2017. pp. 332-336 (Proceedings - International Symposium on Biomedical Imaging).
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Brattain, LJ, Telfer, BA, Samsi, S, Ku, T, Choi, H & Chung, K 2017, Automated dense neuronal fiber tracing and connectivity mapping at cellular level. in 2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017., 7950531, Proceedings - International Symposium on Biomedical Imaging, IEEE Computer Society, pp. 332-336, 14th IEEE International Symposium on Biomedical Imaging, ISBI 2017, Melbourne, Australia, 17/4/18. https://doi.org/10.1109/ISBI.2017.7950531

Automated dense neuronal fiber tracing and connectivity mapping at cellular level. / Brattain, Laura J.; Telfer, Brian A.; Samsi, Siddharth; Ku, Taeyun; Choi, Heejin; Chung, Kwanghun.

2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017. IEEE Computer Society, 2017. p. 332-336 7950531 (Proceedings - International Symposium on Biomedical Imaging).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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Brattain LJ, Telfer BA, Samsi S, Ku T, Choi H, Chung K. Automated dense neuronal fiber tracing and connectivity mapping at cellular level. In 2017 IEEE 14th International Symposium on Biomedical Imaging, ISBI 2017. IEEE Computer Society. 2017. p. 332-336. 7950531. (Proceedings - International Symposium on Biomedical Imaging). https://doi.org/10.1109/ISBI.2017.7950531