A5024854289- Cancer Genomics and Diagnostics
- Genomics and Chromatin Dynamics
- Molecular Biology Techniques and Applications
- DNA Repair Mechanisms
- Genetic factors in colorectal cancer
- Renal and related cancers
- RNA modifications and cancer
- Renal cell carcinoma treatment
- Cutaneous lymphoproliferative disorders research
- Computational Drug Discovery Methods
- Cancer-related molecular mechanisms research
- Fungal Infections and Studies
- T-cell and Retrovirus Studies
- Single-cell and spatial transcriptomics
- Voice and Speech Disorders
- Respiratory and Cough-Related Research
Medical University of Graz
2018-2024
Deregulation of transcription factors (TFs) is an important driver tumorigenesis, but non-invasive assays for assessing factor activity are lacking. Here we develop and validate a minimally invasive method TF based on cell-free DNA sequencing nucleosome footprint analysis. We analyze whole genome data >1,000 samples from cancer patients healthy controls using bioinformatics pipeline developed by us that infers accessibility binding sites fragmentation patterns. observe patient-specific as...
The voice disorder Reinke's edema (RE) is a smoking- and voice-abuse associated benign lesion of the vocal folds, defined by an space, accompanied pathological microvasculature changes immune cell infiltration. Vocal fold fibroblasts (VFF) are main type lamina propria play key role in disease progression. Current therapy restricted to symptomatic treatment. Hence, there urgent need for better understanding molecular causes disease. In present study, we investigated differential expression...
Abstract Deregulation of transcription factors (TFs) is an important driver tumorigenesis. We developed and validated a minimally invasive method for assessing TF activity based on cell-free DNA sequencing nucleosome footprint analysis. analyzed whole genome data >1,000 samples from cancer patients healthy controls using newly bioinformatics pipeline that infers accessibility binding sites fragmentation patterns. observed patient-specific as well tumor-specific patterns, including...
Abstract Background: Liquid biopsy has become a cornerstone of non-invasive cancer diagnostics. While the major analyte for detecting and monitoring tumors been blood, examining other body fluids, such as urine or saliva, is increasingly shifting into focus. Urine particularly valuable specimen due to its easy accessibility. Particularly in urologic cancers, sensitivity liquid could be improved by proximal sampling. there already evidence that cell-free DNA from (ucfDNA) can add diagnostic...
Abstract Background: The study of body fluids other than blood is gaining increasing attention in the field liquid biopsy. Since urine offers a truly non-invasive sampling method, it particularly interesting specimen. Evidence suggests that cell-free DNA (ucfDNA) harbors information about renal and bladder cancer. However, not much known ucfDNA colorectal cancer (CRC) patients. Therefore, we aimed to test feasibility hybrid capture based NGS approach with without preanalytical stabilization...
Structured abstract Motivation The analysis of circulating cell-free DNA (cfDNA) holds immense promise as a non-invasive diagnostic tool across various human conditions. However, extracting biological insights from cfDNA fragments entails navigating complex and diverse bioinformatics methods, encompassing not only sequence variation but also epigenetic characteristics like nucleosome footprints, fragment length, methylation patterns. Results We introduce LBFextract, comprehensive package...
The analysis of circulating cell-free DNA (cfDNA) holds immense promise as a non-invasive diagnostic tool across various human conditions. However, extracting biological insights from cfDNA fragments entails navigating complex and diverse bioinformatics methods, encompassing not only sequence variation, but also epigenetic characteristics like nucleosome footprints, fragment length, methylation patterns.
Renal cell carcinoma (RCC) represents a heterogenous disease in terms of histologic subtypes, prognosis and treatment response. Genetic heterogeneity offers particular challenge to direct available targeted therapies that best match the patient. Profiling monitoring tumor-specific alterations from body fluids has been demonstrated as valuable tool for many tumor types. Yet, utility circulating DNA (ctDNA) RCC not well established. To characterize levels composition ctDNA plasma urine we...
Abstract Renal cell carcinoma (RCC) represents a heterogenous disease in terms of histologic subtypes, prognosis and treatment response. Genetic heterogeneity offers particular challenge to direct available targeted therapies that best match the patient. Profiling monitoring tumor-specific alterations from body fluids has been demonstrated as valuable tool for many tumor types. Yet, utility circulating DNA (ctDNA) RCC not well established. To characterize levels composition ctDNA plasma...