Constance D. Lehman

Thiago Santos, Harish Kamath, Christopher R. McAdams et al.

Automated classification of cancer pathology reports can extract information from unstructured reports and categorize each report into structured diagnosis and severity categories. Thus, such system can reduce the burden for populating tumor registries, help registration for clinical trial as well as developing large dataset for deep learning model development using true pathologic ground truth. However, the content of breast pathology reports can be difficult for categorize due to the high linguistic variability in content and wide variety of potential diagnoses >50. Existing NLP models are primarily focused on developing classifier for primary breast cancer types (e.g. IDC, DCIS, ILC) and tumor characteristics, and ignore the rare diagnosis of cancer subtypes. We then developed a hierarchical hybrid transformer-based pipeline (59 labels) - Hierarchical Classification System for Breast Cancer Specimen Report (HCSBC), which utilizes the potential of the transformer context-preserving NLP technique and compared our model to several state of the art ML and DL models. We trained the model on the EUH data and evaluated our model's performance on two external datasets - MGH and Mayo Clinic. We publicly release the code and a live application under Huggingface spaces repository

Shuhang Wang, Szu-Yeu Hu, Eugene Cheah et al.

This paper proposes a novel U-Net variant using stacked dilated convolutions for medical image segmentation (SDU-Net). SDU-Net adopts the architecture of vanilla U-Net with modifications in the encoder and decoder operations (an operation indicates all the processing for feature maps of the same resolution). Unlike vanilla U-Net which incorporates two standard convolutions in each encoder/decoder operation, SDU-Net uses one standard convolution followed by multiple dilated convolutions and concatenates all dilated convolution outputs as input to the next operation. Experiments showed that SDU-Net outperformed vanilla U-Net, attention U-Net (AttU-Net), and recurrent residual U-Net (R2U-Net) in all four tested segmentation tasks while using parameters around 40% of vanilla U-Net's, 17% of AttU-Net's, and 15% of R2U-Net's.