Publications
Please find my full list of publications on the Google Scholar
Transformer-Based Segmentation Architectures:
When Swin Transformer Meets KANs: An Improved Transformer Architecture for Medical Image Segmentation.
Nishchal Sapkota, Haoyan Shi, Yejia Zhang, Xianshi Ma, Bofang Zheng, Fabian Vazquez, Pengfei Gu, Danny Z. Chen
π IEEE International Symposium on Biomedical Imaging (ISBI), 2026UniCoN: Universal Conditional Networks for Multi-Age Embryonic Cartilage Segmentation with Sparsely Annotated Data.
Nishchal Sapkota, Yejia Zhang, Zihao Zhao, Maria Gomez, Yuhan Hsi, Jordan A. Wilson, Kazuhiko Kawasaki, Greg Holmes, Meng Wu, Ethylin Wang Jabs, Joan T. Richtsmeier, Susan M. Motch Perrine, and Danny Z. Chen
π Nature Scientific Reports, 2025ConUNETR: A Conditional Transformer Network for 3D Micro-CT Embryonic Cartilage Segmentation.
Nishchal Sapkota, Yejia Zhang, Susan M. Motch Perrine, Yuhan Hsi, Sirui Li, Meng Wu, Greg Holmes, Abdul R. Abdulai, Ethylin W. Jabs, Joan T. Richtsmeier, and Danny Z Chen.
π IEEE International Symposium on Biomedical Imaging (ISBI), 2024
Self-supervised Learning:
A point in the right direction: Vector prediction for spatially-aware self-supervised volumetric representation learning.
Yejia Zhang, Pengfei Gu, Nishchal Sapkota, Hao Zheng, Peixian Liang, and Danny Z Chen.
π IEEE International Symposium on Biomedical Imaging (ISBI), 2023Keep your friends close & enemies farther: Debiasing contrastive learning with spatial priors in 3d radiology images.
Yejia Zhang, Nishchal Sapkota, Pengfei Gu, Yaopeng Peng, Hao Zheng, and Danny Z Chen.
π IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2022Unsupervised feature clustering improves contrastive representation learning for medical image segmentation.
Yejia Zhang, Xinrong Hu, Nishchal Sapkota, Yiyu Shi, and Danny Z Chen.
π IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2022
Medical Image Analysis & Computational Pathology:
H-CNN-ViT: A Hierarchical Gated Attention Multi-Branch Model for Bladder Cancer Recurrence Prediction.
Xueyang Li, Zongren Wang, Yuliang Zhang, Zixuan Pan, Yu-Jen Chen, Nishchal Sapkota, Gelei Xu, Danny Z. Chen, and Yiyu Shi.
π IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2025SHMC-Net: A mask-guided feature fusion network for sperm head morphology classification.
Nishchal Sapkota, Yejia Zhang, Sirui Li, Peixian Liang, Zhuo Zhao, Jingjing Zhang, Xiaomin Zha, Yiru Zhou, Yunxia Cao, and Danny Z Chen.
π IEEE International Symposium on Biomedical Imaging (ISBI), 2024IHCSurv: Effective Immunohistochemistry Priors for Cancer Survival Analysis in Gigapixel Multi-stain Whole Slide Images.
Yejia Zhang, Hanqing Chao, Zhongwei Qiu, Wenbin Liu, Yixuan Shen, Nishchal Sapkota, Pengfei Gu, Danny Z Chen, Le Lu, Ke Yan, Dakai Jin, Yun Bian, Hui Jiang
π Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2024PathβGPTOmic: A balanced multiβmodal learning framework for survival outcome prediction.
Hongxiao Wang, Yang Yang, Zhuo Zhao, Pengfei Gu, Nishchal Sapkota, and Danny Z Chen
π IEEE International Symposium on Biomedical Imaging (ISBI), 2024Boosting medical image classification with segmentation foundation model.
Pengfei Gu, Zihan Zhao, Hongxiao Wang, Yaopeng Peng, Yizhe Zhang, Nishchal Sapkota, and Danny Z Chen.
π IEEE International Symposium on Biomedical Imaging (ISBI), 2024Swipe: Eο¬icient and robust medical image segmentation with implicit patch embeddings.
Yejia Zhang, Pengfei Gu, Nishchal Sapkota, Yaopeng Peng, Hao Zheng, and Danny Z Chen.
π Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2023Embryonic cranial cartilage defects in the fgfr3y367c/+ mouse model of achondroplasia.
Susan M Motch Perrine, Nishchal Sapkota, Kazuhiko Kawasaki, Yejia Zhang, Danny Z Chen, Mizuho Kawasaki, Emily Durham, Yann Heuze, Laurence Legeai-Mallet, and Joan T Richtsmeier.
π Anatomical Record, 2023
Applied Statistics & Mathematical Modeling:
Probabilistic Analysis of Revenues in Online Games.
Nishchal Sapkota, and Bernd Schroeder.
π University of Southern Mississippi, 2020Hunting Co-operation in the Middle Predator in Three Species Food Chain Model .
Nishchal Sapkota, Rimsha Bhatta, Phillip Dabney, and Zhifu Xie.
π Proceedings of the Louisiana-Mississippi Section of the Mathematical Association of America, 2019