A5065258686- Cancer Genomics and Diagnostics
- Epigenetics and DNA Methylation
- Single-cell and spatial transcriptomics
- Gene expression and cancer classification
- Corneal Surgery and Treatments
- Reproductive System and Pregnancy
- Molecular Biology Techniques and Applications
- Corneal surgery and disorders
- Endometrial and Cervical Cancer Treatments
- Glaucoma and retinal disorders
- Ovarian cancer diagnosis and treatment
Spanish National Cancer Research Centre
2021-2024
Universidad de Granada
2024
Abstract Cancer cells often exhibit DNA copy number aberrations and can vary widely in their ploidy. Correct estimation of the ploidy single-cell genomes is paramount for downstream analysis. Based only on sequencing information, scAbsolute achieves accurate unbiased measurement replication status, including whole-genome duplications. We demonstrate scAbsolute’s capabilities using experimental cell multiplets, a FUCCI cycle expression system, benchmark against state-of-the-art methods....
Cancer-related systemic inflammation has been associated with prognosis in multiple cancer types. Conversely, local inflammation, which is characterized by dense intratumoral immune infiltrates, a favorable predictor of survival outcome. However, these associations are not well established ovarian cancer, particularly the less frequent endometrioid and clear cell endometriosis histotypes.This retrospective study included 119 patients (63 56 carcinomas). We performed comprehensive association...
Keratoconus (KC) is a corneal disorder with complex etiology, apparently involving both genetic and environmental factors, characterized by progressive thinning protrusion of the cornea. We aimed to identify novel regions associated KC susceptibility, elucidate relevant genes for disease development, explore translational implications therapeutic intervention risk assessment.
Abstract Summary Selecting the optimal cancer cell line for an experiment can be challenging given diversity of lines available. Here, we present CNpare, which identifies similar models based on genome-wide DNA copy number. Availability and implementation CNpare is available as R package at https://github.com/macintyrelab/CNpare. All analysis performed in manuscript reproduced via code found https://github.com/macintyrelab/CNpare_analyses. Supplementary information data are Bioinformatics online.
Abstract Cancer cells often exhibit DNA copy number aberrations and can vary widely in their ploidy. Correct estimation of the ploidy single cell genomes is paramount for downstream analysis. Based only on single-cell sequencing information, scAbsolute achieves accurate unbiased measurement replication status, including whole-genome duplications. We demonstrate scAbsolute’s capabilities using experimental multiplets, a FUCCI cycle expression system, benchmark against state-of-the-art...
Abstract Selecting the optimal cancer cell line for an experiment can be challenging given diversity of lines available. Cell are often chosen based on their tissue origin, however, results large-scale pan-cancer studies suggest that matching molecular features may more appropriate. Existing approaches available gene expression, DNA methylation or low resolution copy number features. However, a specific tool computing similarity high genome-wide profiles is lacking. Here, we present CNpare,...