Classification tasks require annotated data, which can often be expensive, time-consuming, or even unfeasible to collect. This is the case of the medical domain, where large datasets often have few annotated examples. To address this, we propose DecSelfMask (Decoder Self-learning by Masking), an approach to enhance decoder-only performance on classification tasks. We build on common self-learning approaches by leveraging a model to create training examples from unlabeled data, and propose a novel relevance-guided masking strategy. We use relevance attribution methods to determine what portions of unannotated texts are relevant for a task. We then create self-supervised training examples by masking out those portions, training the model to reconstruct them via next-token-prediction. We hypothesize that those examples convey knowledge about the structure and semantics of unannotated data that can be useful for downstream performance. We test our approach on 136 tasks from a collection of 1.9M clinical notes from an Italian hospital. We quantify DecSelfMask's impact on downstream tasks on 5 models of different scales and families, including a probing analysis. Experiments show consistent gains, outperforming the base models (+9.1 points in Macro F1), continual pretraining (+6.3), synthetic label generation (+12.5), as well as common baselines. The results show that relevance attribution can serve as a powerful source of supervision for decoder learning from unlabeled data, beyond existing methods.
Masked image modeling (MIM) is a highly effective self-supervised learning (SSL) approach to extract useful feature representations from unannotated data. Predominantly used random masking methods make SSL less effective for medical images due to the contextual similarity of neighboring patches, leading to information leakage and SSL simplification. Hierarchical shifted window (Swin) transformer, a highly effective approach for medical images cannot use advanced masking methods as it lacks a global [CLS] token. Hence, we introduced an attention guided masking mechanism for Swin within a co-distillation learning framework to selectively mask semantically co-occurring and discriminative patches, to reduce information leakage and increase the difficulty of SSL pretraining. However, attention guided masking inevitably reduces the diversity of attention heads, which negatively impacts downstream task performance. To address this, we for the first time, integrate a noisy teacher into the co-distillation framework (termed DAGMaN) that performs attentive masking while preserving high attention head diversity. We demonstrate the capability of DAGMaN on multiple tasks including full- and few-shot lung nodule classification, immunotherapy outcome prediction, tumor segmentation, and unsupervised organs clustering.
Amos et al. (2024) showed that the accuracy of Transformer models in sequence classification can be significantly improved by first pretraining with a masked token prediction objective without external data or augmentation, a procedure referred to as self-pretraining (SPT). While the primary objective of Amos et al. (2024) was to showcase that Transformers can achieve strong performance on the Long-Range Arena (LRA), their pipeline raises more fundamental questions: How does SPT drive optimization to better solutions? Why can standard supervised training fail in Transformers? To better understand this, we replicate and systematically ablate the findings of Amos et al. (2024). Our ablations suggest that a central bottleneck in the studied settings is not depth or generalization alone, but the ability of label supervision to learn useful query-key Attention patterns from random initialization. With a minimal setup, we identify learning proximity interactions - turning absolute positional encodings into proximity-biased Attention scores - as a key source of the improvements brought by SPT. Finally, in a simplified theoretical setup, we show that label supervision can be locally blind to certain Attention-score directions that are instead detectable through masked reconstruction.
Transformer architectures, including nnFormer,have demonstrated promising results in volumetric medical image segmentation by being able to capture long-range spatial interactions. Although they have high performance, these models need large quantities of labeled training data and are also likely to overfit and become training unstable. This is a serious practical problem because it is not only time-consuming but also expensive to obtain medical images that are annotated by experts. Moreover, fully supervised traditional training pipelines do not take advantage of the available large amounts of unlabeled medical imaging data that can be easily obtained in the clinics. We have solved these drawbacks by advancing the efficiency of the nnFormer with a self-supervised pretraining framework, which is based on the Masked Autoencoders (MAE). In this method, the model is pretrained on unlabeled volumetric medical images to reconstruct randomly masked parts of the input. This allows the encoder to learn meaningful anatomical and structural representations . The encoder is then further fine-tuned on a labeled dataset on the downstream segmentation task. Conducted Experiment shows that the offered method leads to a higher segmentation performance on the count of Dice score, a quicker convergence rate on the course of the fine-tuning procedure, and a superior generalization on the basis of limited labeled data . These findings validate that self-supervised learning combined with transformer-based segmentation models is an appropriate approach to the problem of data shortage in medical image analysis.
R. M. Krishna Sureddi, T. Satyanarayana Murthy, Nomula Varsha Reddy +2