# Semantic Segmentation of iPS Cells: Case Study on Model Complexity in Biomedical Imaging

arXiv: https://arxiv.org/abs/2507.21608 · HTML: https://mlsanity.com/paper/2507.21608/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 11 of its 24 references that are in the map.
- First posted on arXiv 29 Jul 2025.

## Builds on (most cited first, 11 of 11)

- [Segment Anything](https://mlsanity.com/paper/2304.02643/) (2023)
- [DeepLab: Semantic Image Segmentation with Deep Convolutional Nets, Atrous Convolution, and Fully Connected CRFs](https://mlsanity.com/paper/1606.00915/) (2016)
- [Encoder-Decoder with Atrous Separable Convolution for Semantic Image Segmentation](https://mlsanity.com/paper/1802.02611/) (2018)
- [SAM 2: Segment Anything in Images and Videos](https://mlsanity.com/paper/2408.00714/) (2024)
- [Video Object Segmentation using Space-Time Memory Networks](https://mlsanity.com/paper/1904.00607/) (2019)
- [nnU-Net Revisited: A Call for Rigorous Validation in 3D Medical Image Segmentation](https://mlsanity.com/paper/2404.09556/) (2024)
- [On The Computational Complexity of Self-Attention](https://mlsanity.com/paper/2209.04881/) (2022)
- [Towards Segment Anything Model (SAM) for Medical Image Segmentation: A Survey](https://mlsanity.com/paper/2305.03678/) (2023)
- [Biomedical SAM 2: Segment Anything in Biomedical Images and Videos](https://mlsanity.com/paper/2408.03286/) (2024)
- [Improving the Reliability of Semantic Segmentation of Medical Images by Uncertainty Modeling with Bayesian Deep Networks and Curriculum Learning](https://mlsanity.com/paper/2108.11693/) (2021)
- [SAMCL: Empowering SAM to Continually Learn from Dynamic Domains with Extreme Storage Efficiency](https://mlsanity.com/paper/2412.05012/) (2024)

## Abstract (arXiv)

Medical image segmentation requires not only accuracy but also robustness under challenging imaging conditions. In this study, we show that a carefully configured DeepLabv3 model can achieve high performance in segmenting induced pluripotent stem (iPS) cell colonies, and, under our experimental conditions, outperforms large-scale foundation models such as SAM2 and its medical variant MedSAM2 without structural modifications. These results suggest that, for specialized tasks characterized by subtle, low-contrast boundaries, increased model complexity does not necessarily translate to better performance. Our work revisits the assumption that ever-larger and more generalized architectures are always preferable, and provides evidence that appropriately adapted, simpler models may offer strong accuracy and practical reliability in domain-specific biomedical applications. We also offer an open-source implementation that includes strategies for small datasets and domain-specific encoding, with the aim of supporting further advances in semantic segmentation for regenerative medicine and related fields.