Zhi Lü

Letian Gao, Zhi John Lu

RNA plays a pivotal role in diverse biological processes, ranging from gene regulation to catalysis. Recent advances in RNA design, such as RfamGen, Ribodiffusion and RDesign, have demonstrated promising results, with successful designs of functional sequences. However, RNA design remains challenging due to the inherent flexibility of RNA molecules and the scarcity of experimental data on tertiary and secondary structures compared to proteins. These limitations highlight the need for a more universal and comprehensive approach to RNA design that integrates diverse annotation information at the sequence level. To address these challenges, we propose RNACG (RNA Conditional Generator), a universal framework for RNA sequence design based on flow matching. RNACG supports diverse conditional inputs, including structural, functional, and family-specific annotations, and offers a modular design that allows users to customize the encoding network for specific tasks. By unifying sequence generation under a single framework, RNACG enables the integration of multiple RNA design paradigms, from family-specific generation to tertiary structure inverse folding.

Zhi Lu, Vrizlynn L. L. Thing

AI methods have been proven to yield impressive performance on Android malware detection. However, most AI-based methods make predictions of suspicious samples in a black-box manner without transparency on models' inference. The expectation on models' explainability and transparency by cyber security and AI practitioners to assure the trustworthiness increases. In this article, we present a novel model-agnostic explanation method for AI models applied for Android malware detection. Our proposed method identifies and quantifies the data features relevance to the predictions by two steps: i) data perturbation that generates the synthetic data by manipulating features' values; and ii) optimization of features attribution values to seek significant changes of prediction scores on the perturbed data with minimal feature values changes. The proposed method is validated by three experiments. We firstly demonstrate that our proposed model explanation method can aid in discovering how AI models are evaded by adversarial samples quantitatively. In the following experiments, we compare the explainability and fidelity of our proposed method with state-of-the-arts, respectively.