# NeuRegenerate: A Framework for Visualizing Neurodegeneration

arXiv: https://arxiv.org/abs/2202.01115 · HTML: https://mlsanity.com/paper/2202.01115/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Builds on 12 of its 49 references that are in the map.
- First posted on arXiv 2 Feb 2022.

## Builds on (most cited first, 12 of 12)

- [Image-to-Image Translation with Conditional Adversarial Networks](https://mlsanity.com/paper/1611.07004/) (2016)
- [Conditional Generative Adversarial Nets](https://mlsanity.com/paper/1411.1784/) (2014)
- [Spectral Normalization for Generative Adversarial Networks](https://mlsanity.com/paper/1802.05957/) (2018)
- [Unpaired Image-to-Image Translation using Cycle-Consistent Adversarial Networks](https://mlsanity.com/paper/1703.10593/) (2017)
- [DualGAN: Unsupervised Dual Learning for Image-to-Image Translation](https://mlsanity.com/paper/1704.02510/) (2017)
- [Learning to Discover Cross-Domain Relations with Generative Adversarial Networks](https://mlsanity.com/paper/1703.05192/) (2017)
- [Distribution Matching Losses Can Hallucinate Features in Medical Image Translation](https://mlsanity.com/paper/1805.08841/) (2018)
- [Medical Image Synthesis with Context-Aware Generative Adversarial Networks](https://mlsanity.com/paper/1612.05362/) (2016)
- [CycleGAN, a Master of Steganography](https://mlsanity.com/paper/1712.02950/) (2017)
- [Detecting Cancer Metastases on Gigapixel Pathology Images](https://mlsanity.com/paper/1703.02442/) (2017)
- [Augmenting Colonoscopy using Extended and Directional CycleGAN for Lossy Image Translation](https://mlsanity.com/paper/2003.12473/) (2020)
- [Three-dimensional virtual refocusing of fluorescence microscopy images using deep learning](https://mlsanity.com/paper/1901.11252/) (2019)

## Built on by (most cited first, 1 of 1)

- [PhagoStat a scalable and interpretable end to end framework for efficient quantification of cell phagocytosis in neurodegenerative disease studies](https://mlsanity.com/paper/2304.13764/) (2023)

## Abstract (arXiv)

Recent advances in high-resolution microscopy have allowed scientists to better understand the underlying brain connectivity. However, due to the limitation that biological specimens can only be imaged at a single timepoint, studying changes to neural projections is limited to general observations using population analysis. In this paper, we introduce NeuRegenerate, a novel end-to-end framework for the prediction and visualization of changes in neural fiber morphology within a subject, for specified age-timepoints.To predict projections, we present neuReGANerator, a deep-learning network based on cycle-consistent generative adversarial network (cycleGAN) that translates features of neuronal structures in a region, across age-timepoints, for large brain microscopy volumes. We improve the reconstruction quality of neuronal structures by implementing a density multiplier and a new loss function, called the hallucination loss.Moreover, to alleviate artifacts that occur due to tiling of large input volumes, we introduce a spatial-consistency module in the training pipeline of neuReGANerator. We show that neuReGANerator has a reconstruction accuracy of 94% in predicting neuronal structures. Finally, to visualize the predicted change in projections, NeuRegenerate offers two modes: (1) neuroCompare to simultaneously visualize the difference in the structures of the neuronal projections, across the age timepoints, and (2) neuroMorph, a vesselness-based morphing technique to interactively visualize the transformation of the structures from one age-timepoint to the other. Our framework is designed specifically for volumes acquired using wide-field microscopy. We demonstrate our framework by visualizing the structural changes in neuronal fibers within the cholinergic system of the mouse brain between a young and old specimen.