# Introducing NCL-SM: A Fully Annotated Dataset of Images from Human Skeletal Muscle Biopsies

arXiv: https://arxiv.org/abs/2311.11099 · HTML: https://mlsanity.com/paper/2311.11099/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 5 of its 23 references that are in the map.
- First posted on arXiv 18 Nov 2023.

## Builds on (most cited first, 5 of 5)

- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [Microsoft COCO: Common Objects in Context](https://mlsanity.com/paper/1405.0312/) (2014)
- [Deep Inside Convolutional Networks: Visualising Image Classification Models and Saliency Maps](https://mlsanity.com/paper/1312.6034/) (2013)
- [Image Segmentation Using Deep Learning: A Survey](https://mlsanity.com/paper/2001.05566/) (2020)
- [Cell Detection with Star-convex Polygons](https://mlsanity.com/paper/1806.03535/) (2018)

## Abstract (arXiv)

Single cell analysis of skeletal muscle (SM) tissue is a fundamental tool for understanding many neuromuscular disorders. For this analysis to be reliable and reproducible, identification of individual fibres within microscopy images (segmentation) of SM tissue should be precise. There is currently no tool or pipeline that makes automatic and precise segmentation and curation of images of SM tissue cross-sections possible. Biomedical scientists in this field rely on custom tools and general machine learning (ML) models, both followed by labour intensive and subjective manual interventions to get the segmentation right. We believe that automated, precise, reproducible segmentation is possible by training ML models. However, there are currently no good quality, publicly available annotated imaging datasets available for ML model training. In this paper we release NCL-SM: a high quality bioimaging dataset of 46 human tissue sections from healthy control subjects and from patients with genetically diagnosed muscle pathology. These images include > 50k manually segmented muscle fibres (myofibres). In addition we also curated high quality myofibres and annotated reasons for rejecting low quality myofibres and regions in SM tissue images, making this data completely ready for downstream analysis. This, we believe, will pave the way for development of a fully automatic pipeline that identifies individual myofibres within images of tissue sections and, in particular, also classifies individual myofibres that are fit for further analysis.