# Single-cell Curriculum Learning-based Deep Graph Embedding Clustering

arXiv: https://arxiv.org/abs/2408.10511 · HTML: https://mlsanity.com/paper/2408.10511/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 4 of its 25 references that are in the map.
- First posted on arXiv 20 Aug 2024.

## Builds on (most cited first, 4 of 4)

- [Semi-Supervised Classification with Graph Convolutional Networks](https://mlsanity.com/paper/1609.02907/) (2016)
- [CLNode: Curriculum Learning for Node Classification](https://mlsanity.com/paper/2206.07258/) (2022)
- [Adap DP-FL: Differentially Private Federated Learning with Adaptive Noise](https://mlsanity.com/paper/2211.15893/) (2022)
- [DP-DCAN: Differentially Private Deep Contrastive Autoencoder Network for Single-cell Clustering](https://mlsanity.com/paper/2311.03410/) (2023)

## Abstract (arXiv)

The swift advancement of single-cell RNA sequencing (scRNA-seq) technologies enables the investigation of cellular-level tissue heterogeneity. Cell annotation significantly contributes to the extensive downstream analysis of scRNA-seq data. However, The analysis of scRNA-seq for biological inference presents challenges owing to its intricate and indeterminate data distribution, characterized by a substantial volume and a high frequency of dropout events. Furthermore, the quality of training samples varies greatly, and the performance of the popular scRNA-seq data clustering solution GNN could be harmed by two types of low-quality training nodes: 1) nodes on the boundary; 2) nodes that contribute little additional information to the graph. To address these problems, we propose a single-cell curriculum learning-based deep graph embedding clustering (scCLG). We first propose a Chebyshev graph convolutional autoencoder with multi-criteria (ChebAE) that combines three optimization objectives, including topology reconstruction loss of cell graphs, zero-inflated negative binomial (ZINB) loss, and clustering loss, to learn cell-cell topology representation. Meanwhile, we employ a selective training strategy to train GNN based on the features and entropy of nodes and prune the difficult nodes based on the difficulty scores to keep the high-quality graph. Empirical results on a variety of gene expression datasets show that our model outperforms state-of-the-art methods. The code of scCLG will be made publicly available at https://github.com/LFD-byte/scCLG.