# Revealing Cortical Layers In Histological Brain Images With Self-Supervised Graph Convolutional Networks Applied To Cell-Graphs

arXiv: https://arxiv.org/abs/2311.15262 · HTML: https://mlsanity.com/paper/2311.15262/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 7 of its 26 references that are in the map.
- First posted on arXiv 26 Nov 2023.

## Builds on (most cited first, 7 of 7)

- [A Simple Framework for Contrastive Learning of Visual Representations](https://mlsanity.com/paper/2002.05709/) (2020)
- [Semi-Supervised Classification with Graph Convolutional Networks](https://mlsanity.com/paper/1609.02907/) (2016)
- [UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction](https://mlsanity.com/paper/1802.03426/) (2018)
- [Graph Contrastive Learning with Augmentations](https://mlsanity.com/paper/2010.13902/) (2020)
- [Deep Graph Infomax](https://mlsanity.com/paper/1809.10341/) (2018)
- [From Louvain to Leiden: guaranteeing well-connected communities](https://mlsanity.com/paper/1810.08473/) (2018)
- [NCIS: Deep Color Gradient Maps Regression and Three-Class Pixel Classification for Enhanced Neuronal Cell Instance Segmentation in Nissl-Stained Histological Images](https://mlsanity.com/paper/2306.15784/) (2023)

## Abstract (arXiv)

Identifying cerebral cortex layers is crucial for comparative studies of the cytoarchitecture aiming at providing insights into the relations between brain structure and function across species. The absence of extensive annotated datasets typically limits the adoption of machine learning approaches, leading to the manual delineation of cortical layers by neuroanatomists. We introduce a self-supervised approach to detect layers in 2D Nissl-stained histological slices of the cerebral cortex. It starts with the segmentation of individual cells and the creation of an attributed cell-graph. A self-supervised graph convolutional network generates cell embeddings that encode morphological and structural traits of the cellular environment and are exploited by a community detection algorithm for the final layering. Our method, the first self-supervised of its kind with no spatial transcriptomics data involved, holds the potential to accelerate cytoarchitecture analyses, sidestepping annotation needs and advancing cross-species investigation.