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Background. Breast cancer comprises at least five molecular subtypes with distinct prognoses, yet PAM50 classification relies on transcriptomics alone. Whether integrating DNA methylation and copy number data improves subtype recovery and…
High-throughput omics profiling advancements have greatly enhanced cancer patient stratification. However, incomplete data in multi-omics integration presents a significant challenge, as traditional methods like sample exclusion or…
Medical Informatics and the application of modern signal processing in the assistance of the diagnostic process in medical imaging is one of the more recent and active research areas today. This thesis addresses a variety of issues related…
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…
Drug resistance presents a major challenge in cancer therapy. Single cell profiling offers insights into cellular heterogeneity, yet the application of large-scale foundation models for predicting drug response in single cell data remains…
In many engineering applications, processes must be followed precisely, making conformance checking between event logs and declarative process models crucial for ensuring adherence to desired behaviors. This is a critical area where…
Genetic association tests involving copy-number variants (CNVs) are complicated by the fact that CNVs span multiple markers at which measurements are taken. The power of an association test at a single marker is typically low, and it is…
Searching for information about a specific person is an online activity frequently performed by many users. In most cases, users are aided by queries containing a name and sending back to the web search engines for finding their will.…
The rapid diversification of social media platforms and the increasing restrictions on official APIs have significantly complicated cross-platform analysis. Researchers are often forced to rely on heterogeneous datasets obtained through web…
Precision medicine is a paradigm shift in healthcare relying heavily on genomics data. However, the complexity of biological interactions, the large number of genes as well as the lack of comparisons on the analysis of data, remain a…
This study independently reproduces the malware detection methodology presented by Felli cious et al. [7], which employs order-invariant API call frequency analysis using Random Forest classification. We utilized the original public dataset…
Motivation: Alignment-free distance and similarity functions (AF functions, for short) are a well established alternative to two and multiple sequence alignments for many genomic, metagenomic and epigenomic tasks. Due to data-intensive…
Massively parallel sequencing techniques have revolutionized biological and medical sciences by providing unprecedented insight into the genomes of humans, animals, and microbes. Modern sequencing platforms generate enormous amounts of…
Recurrent claims present a major challenge for automated fact-checking systems designed to combat misinformation, especially in multilingual settings. While tasks such as claim matching and fact-checked claim retrieval aim to address this…
Recent work synthesizes agentic tasks for post-training tool-using LLMs, yet robust generalization under shifts in tasks and toolsets remains an open challenge. We trace this brittleness to insufficient diversity in synthesized tasks.…
A key challenge in genomics is to identify genetic variants that distinguish patients with different survival time following diagnosis or treatment. While the log-rank test is widely used for this purpose, nearly all implementations of the…
The Cancer Registry of Norway (CRN) collects, curates, and manages data related to cancer patients in Norway, supported by an interactive, human-in-the-loop, socio-technical decision support software system. Automated software testing of…
Revealing the clonal composition of a single tumor is essential for identifying cell subpopulations with metastatic potential in primary tumors or with resistance to therapies in metastatic tumors. Sequencing technologies provide an…
The complexity and variability inherent in high-resolution pathological images present significant challenges in computational pathology. While pathology foundation models leveraging AI have catalyzed transformative advancements, their…
Cancer is a highly heterogeneous disease with significant variability in molecular features and clinical outcomes, making diagnosis and treatment challenging. In recent years, high-throughput omic technologies have facilitated the discovery…