Yang Li

Zhiyuan Peng, Naifan Zhang, Yuanbo Tang et al.

DNA sequences encode critical genetic information, yet their variable length and discrete nature impede direct utilization in deep learning models. Existing DNA representation schemes convert sequences into numerical vectors but fail to capture structural features of local subsequences and often suffer from limited interpretability and poor generalization on small datasets. To address these limitations, we propose Dy-mer, an interpretable and robust DNA representation scheme based on dictionary learning. Dy-mer formulates an optimization problem in tensor format, which ensures computational efficiency in batch processing. Our scheme reconstructs DNA sequences as concatenations of dynamic-length subsequences (dymers) through a convolution operation and simultaneously optimize a learnable dymer dictionary and sparse representations. Our method achieves state-of-the-art performance in downstream tasks such as DNA promoter classification and motif detection. Experiments further show that the learned dymers match known DNA motifs and clustering using Dy-mer yields semantically meaningful phylogenetic trees. These results demonstrate that the proposed approach achieves both strong predictive performance and high interpretability, making it well suited for biological research applications.

Yang Li, Chunhe Xia, Wanshuang Lin et al.

With the rapid development of machine learning and a growing concern for data privacy, federated learning has become a focal point of attention. However, attacks on model parameters and a lack of incentive mechanisms hinder the effectiveness of federated learning. Therefore, we propose A Privacy Protected Blockchain-based Federated Learning Model (PPBFL) to enhance the security of federated learning and encourage active participation of nodes in model training. Blockchain technology ensures the integrity of model parameters stored in the InterPlanetary File System (IPFS), providing protection against tampering. Within the blockchain, we introduce a Proof of Training Work (PoTW) consensus algorithm tailored for federated learning, aiming to incentive training nodes. This algorithm rewards nodes with greater computational power, promoting increased participation and effort in the federated learning process. A novel adaptive differential privacy algorithm is simultaneously applied to local and global models. This safeguards the privacy of local data at training clients, preventing malicious nodes from launching inference attacks. Additionally, it enhances the security of the global model, preventing potential security degradation resulting from the combination of numerous local models. The possibility of security degradation is derived from the composition theorem. By introducing reverse noise in the global model, a zero-bias estimate of differential privacy noise between local and global models is achieved. Furthermore, we propose a new mix transactions mechanism utilizing ring signature technology to better protect the identity privacy of local training clients. Security analysis and experimental results demonstrate that PPBFL, compared to baseline methods, not only exhibits superior model performance but also achieves higher security.

Yang Li, Siyuan Shan, Qin Liu et al.

Truly intelligent systems are expected to make critical decisions with incomplete and uncertain data. Active feature acquisition (AFA), where features are sequentially acquired to improve the prediction, is a step towards this goal. However, current AFA models all deal with a small set of candidate features and have difficulty scaling to a large feature space. Moreover, they are ignorant about the valid domains where they can predict confidently, thus they can be vulnerable to out-of-distribution (OOD) inputs. In order to remedy these deficiencies and bring AFA models closer to practical use, we propose several techniques to advance the current AFA approaches. Our framework can easily handle a large number of features using a hierarchical acquisition policy and is more robust to OOD inputs with the help of an OOD detector for partially observed data. Extensive experiments demonstrate the efficacy of our framework over strong baselines.