XVir: A Transformer-Based Architecture for Identifying Viral Reads from Cancer Samples

It is estimated that approximately 15% of cancers worldwide can be linked to viral infections. The viruses that can cause or increase the risk of cancer include human papillomavirus, hepatitis B and C viruses, Epstein-Barr virus, and human immunodeficiency virus, to name a few. The computational analysis of the massive amounts of tumor DNA data, whose collection is enabled by the recent advancements in sequencing technologies, have allowed studies of the potential association between cancers and viral pathogens. However, the high diversity of oncoviral families makes reliable detection of viral DNA difficult and thus, renders such analysis challenging. In this paper, we introduce XVir, a data pipeline that relies on a transformer-based deep learning architecture to reliably identify viral DNA present in human tumors. In particular, XVir is trained on genomic sequencing reads from viral and human genomes and may be used with tumor sequence information to find evidence of viral DNA in human cancers. Results on semi-experimental data demonstrate that XVir is capable of achieving high detection accuracy, generally outperforming state-of-the-art competing methods while being more compact and less computationally demanding.

Darknet and Deepnet Mining for Proactive Cybersecurity Threat Intelligence

In this paper, we present an operational system for cyber threat intelligence gathering from various social platforms on the Internet particularly sites on the darknet and deepnet. We focus our attention to collecting information from hacker forum discussions and marketplaces offering products and services focusing on malicious hacking. We have developed an operational system for obtaining information from these sites for the purposes of identifying emerging cyber threats. Currently, this system collects on average 305 high-quality cyber threat warnings each week. These threat warnings include information on newly developed malware and exploits that have not yet been deployed in a cyber-attack. This provides a significant service to cyber-defenders. The system is significantly augmented through the use of various data mining and machine learning techniques. With the use of machine learning models, we are able to recall 92% of products in marketplaces and 80% of discussions on forums relating to malicious hacking with high precision. We perform preliminary analysis on the data collected, demonstrating its application to aid a security expert for better threat analysis.