Mining Representative Unsubstituted Graph Patterns Using Prior Similarity Matrix

One of the most powerful techniques to study protein structures is to look for recurrent fragments (also called substructures or spatial motifs), then use them as patterns to characterize the proteins under study. An emergent trend consists in parsing proteins three-dimensional (3D) structures into graphs of amino acids. Hence, the search of recurrent spatial motifs is formulated as a process of frequent subgraph discovery where each subgraph represents a spatial motif. In this scope, several efficient approaches for frequent subgraph discovery have been proposed in the literature. However, the set of discovered frequent subgraphs is too large to be efficiently analyzed and explored in any further process. In this paper, we propose a novel pattern selection approach that shrinks the large number of discovered frequent subgraphs by selecting the representative ones. Existing pattern selection approaches do not exploit the domain knowledge. Yet, in our approach we incorporate the evolutionary information of amino acids defined in the substitution matrices in order to select the representative subgraphs. We show the effectiveness of our approach on a number of real datasets. The results issued from our experiments show that our approach is able to considerably decrease the number of motifs while enhancing their interestingness

Adversarial Attacks on Code Models with Discriminative Graph Patterns

Pre-trained language models of code are now widely used in various software engineering tasks such as code generation, code completion, vulnerability detection, etc. This, in turn, poses security and reliability risks to these models. One of the important threats is \textit{adversarial attacks}, which can lead to erroneous predictions and largely affect model performance on downstream tasks. Current adversarial attacks on code models usually adopt fixed sets of program transformations, such as variable renaming and dead code insertion, leading to limited attack effectiveness. To address the aforementioned challenges, we propose a novel adversarial attack framework, GraphCodeAttack, to better evaluate the robustness of code models. Given a target code model, GraphCodeAttack automatically mines important code patterns, which can influence the model's decisions, to perturb the structure of input code to the model. To do so, GraphCodeAttack uses a set of input source codes to probe the model's outputs and identifies the \textit{discriminative} ASTs patterns that can influence the model decisions. GraphCodeAttack then selects appropriate AST patterns, concretizes the selected patterns as attacks, and inserts them as dead code into the model's input program. To effectively synthesize attacks from AST patterns, GraphCodeAttack uses a separate pre-trained code model to fill in the ASTs with concrete code snippets. We evaluate the robustness of two popular code models (e.g., CodeBERT and GraphCodeBERT) against our proposed approach on three tasks: Authorship Attribution, Vulnerability Prediction, and Clone Detection. The experimental results suggest that our proposed approach significantly outperforms state-of-the-art approaches in attacking code models such as CARROT and ALERT

Explainable Classification of Brain Networks via Contrast Subgraphs

Mining human-brain networks to discover patterns that can be used to discriminate between healthy individuals and patients affected by some neurological disorder, is a fundamental task in neuroscience. Learning simple and interpretable models is as important as mere classification accuracy. In this paper we introduce a novel approach for classifying brain networks based on extracting contrast subgraphs, i.e., a set of vertices whose induced subgraphs are dense in one class of graphs and sparse in the other. We formally define the problem and present an algorithmic solution for extracting contrast subgraphs. We then apply our method to a brain-network dataset consisting of children affected by Autism Spectrum Disorder and children Typically Developed. Our analysis confirms the interestingness of the discovered patterns, which match background knowledge in the neuroscience literature. Further analysis on other classification tasks confirm the simplicity, soundness, and high explainability of our proposal, which also exhibits superior classification accuracy, to more complex state-of-the-art methods.Comment: To be published at KDD 202

Discriminative frequent subgraph mining with optimality guarantees

The goal of frequent subgraph mining is to detect subgraphs that frequently occur in a dataset of graphs. In classification settings, one is often interested in discovering discriminative frequent subgraphs, whose presence or absence is indicative of the class membership of a graph. In this article, we propose an approach to feature selection on frequent subgraphs, called CORK, that combines two central advantages. First, it optimizes a submodular quality criterion, which means that we can yield a near-optimal solution using greedy feature selection. Second, our submodular quality function criterion can be integrated into gSpan, the state-of-the-art tool for frequent subgraph mining, and help to prune the search space for discriminative frequent subgraphs even during frequent subgraph mining

Data-Mining Techniques for Call-Graph-Based Software-Defect Localisation

Defect localisation is an important problem in software engineering. This dissertation investigates call-graph-mining-based software defect localisation, which supports software developers by providing hints where defects might be located. It extends the state-of-the-art by proposing new graph representations and mining techniques for weighted graphs. This leads to a broader range of detectable defects, to an increased localisation precision and to enhanced scalability