arXiv subjects

Olivera Kotevska

Publications and source records attributed to Olivera Kotevska.

25 records · Page 2Linked to original sources

arXiv2025

HEMERA: A Human-Explainable Transformer Model for Estimating Lung Cancer Risk using GWAS Data

Lung cancer (LC) is the third most common cancer and the leading cause of cancer deaths in the US. Although smoking is the primary risk factor, the occurrence of LC in never-smokers and familial aggregation studies highlight a genetic component. Genetic biomarkers identified through genome-wide association studies (GWAS) are promising tools for assessing LC risk. We introduce HEMERA (Human-Explainable Transformer Model for Estimating Lung Cancer Risk using GWAS Data), a new framework that applies explainable transformer-based deep learning to GWAS data of single nucleotide polymorphisms (SNPs) for predicting LC risk. Unlike prior approaches, HEMERA directly processes raw genotype data without clinical covariates, introducing additive positional encodings, neural genotype embeddings, and refined variant filtering. A post hoc explainability module based on Layer-wise Integrated Gradients enables attribution of model predictions to specific SNPs, aligning strongly with known LC risk loci. Trained on data from 27,254 Million Veteran Program participants, HEMERA achieved >99% AUC (area under receiver characteristics) score. These findings support transparent, hypothesis-generating models for personalized LC risk assessment and early intervention.

cs.LG↗

arXiv2025

OmniFed: A Modular Framework for Configurable Federated Learning from Edge to HPC

Federated Learning (FL) is critical for edge and High Performance Computing (HPC) where data is not centralized and privacy is crucial. We present OmniFed, a modular framework designed around decoupling and clear separation of concerns for configuration, orchestration, communication, and training logic. Its architecture supports configuration-driven prototyping and code-level override-what-you-need customization. We also support different topologies, mixed communication protocols within a single deployment, and popular training algorithms. It also offers optional privacy mechanisms including Differential Privacy (DP), Homomorphic Encryption (HE), and Secure Aggregation (SA), as well as compression strategies. These capabilities are exposed through well-defined extension points, allowing users to customize topology and orchestration, learning logic, and privacy/compression plugins, all while preserving the integrity of the core system. We evaluate multiple models and algorithms to measure various performance metrics. By unifying topology configuration, mixed-protocol communication, and pluggable modules in one stack, OmniFed streamlines FL deployment across heterogeneous environments. Github repository is available at https://github.com/at-aaims/OmniFed.

cs.LG↗

arXiv2024

Improving Robustness of Spectrogram Classifiers with Neural Stochastic Differential Equations

Signal analysis and classification is fraught with high levels of noise and perturbation. Computer-vision-based deep learning models applied to spectrograms have proven useful in the field of signal classification and detection; however, these methods aren't designed to handle the low signal-to-noise ratios inherent within non-vision signal processing tasks. While they are powerful, they are currently not the method of choice in the inherently noisy and dynamic critical infrastructure domain, such as smart-grid sensing, anomaly detection, and non-intrusive load monitoring.

cs.LG↗

arXiv2024

Dealing Doubt: Unveiling Threat Models in Gradient Inversion Attacks under Federated Learning, A Survey and Taxonomy

Federated Learning (FL) has emerged as a leading paradigm for decentralized, privacy preserving machine learning training. However, recent research on gradient inversion attacks (GIAs) have shown that gradient updates in FL can leak information on private training samples. While existing surveys on GIAs have focused on the honest-but-curious server threat model, there is a dearth of research categorizing attacks under the realistic and far more privacy-infringing cases of malicious servers and clients. In this paper, we present a survey and novel taxonomy of GIAs that emphasize FL threat models, particularly that of malicious servers and clients. We first formally define GIAs and contrast conventional attacks with the malicious attacker. We then summarize existing honest-but-curious attack strategies, corresponding defenses, and evaluation metrics. Critically, we dive into attacks with malicious servers and clients to highlight how they break existing FL defenses, focusing specifically on reconstruction methods, target model architectures, target data, and evaluation metrics. Lastly, we discuss open problems and future research directions.

cs.CR↗

arXiv2023

Whitepaper on Reusable Hybrid and Multi-Cloud Analytics Service Framework

Over the last several years, the computation landscape for conducting data analytics has completely changed. While in the past, a lot of the activities have been undertaken in isolation by companies, and research institutions, today's infrastructure constitutes a wealth of services offered by a variety of providers that offer opportunities for reuse, and interactions while leveraging service collaboration, and service cooperation. This document focuses on expanding analytics services to develop a framework for reusable hybrid multi-service data analytics. It includes (a) a short technology review that explicitly targets the intersection of hybrid multi-provider analytics services, (b) a small motivation based on use cases we looked at, (c) enhancing the concepts of services to showcase how hybrid, as well as multi-provider services can be integrated and reused via the proposed framework, (d) address analytics service composition, and (e) integrate container technologies to achieve state-of-the-art analytics service deployment

cs.DC↗

arXiv2023

A Survey on Privacy in Graph Neural Networks: Attacks, Preservation, and Applications

Graph Neural Networks (GNNs) have gained significant attention owing to their ability to handle graph-structured data and the improvement in practical applications. However, many of these models prioritize high utility performance, such as accuracy, with a lack of privacy consideration, which is a major concern in modern society where privacy attacks are rampant. To address this issue, researchers have started to develop privacy-preserving GNNs. Despite this progress, there is a lack of a comprehensive overview of the attacks and the techniques for preserving privacy in the graph domain. In this survey, we aim to address this gap by summarizing the attacks on graph data according to the targeted information, categorizing the privacy preservation techniques in GNNs, and reviewing the datasets and applications that could be used for analyzing/solving privacy issues in GNNs. We also outline potential directions for future research in order to build better privacy-preserving GNNs.

cs.LG↗

arXiv2019

Increasing city safety awareness regarding disruptive traffic stream

Transportation systems serve the people in essence, in this study we focus in traffic information related to violation events to respond to safety requirements of the cities. Traffic violation events have an important role in city safety awareness and secure travel. In this work, we describe the use of knowledge discovery from traffic violation reports in combination with demographics approach using inductive logic programming to automatically extract knowledge about traffic violation behavior and their impact on the environment.

cs.CY↗