0000000000384716
AUTHOR
Tobias Kremer
Additional file 1: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Supplementary Data. List of abbreviations. (PDF 29 kb)
Lagrangian Description of Air Masses Associated with Latent Heat Release in Tropical Storm Karl (2016) during Extratropical Transition
Abstract Extratropical transition (ET) of tropical cyclones involves distinct changes of the cyclone’s structure that are not yet well understood. This study presents for the first time a comprehensive Lagrangian description of structure change near the inner core. A large sample of trajectories is computed from a convection-permitting numerical simulation of the ET of Tropical Storm Karl (2016). Three main airstreams are considered: those associated with the inner-core convection, inner-core descent, and the developing warm conveyor belt. Analysis of these airstreams is performed both in thermodynamic and physical space. Prior to ET, Karl is embedded in weak vertical wind shear and its int…
The Role of Wind Speed and Wind Shear for Banner Cloud Formation
Abstract Banner clouds are clouds that appear to be attached to the leeward face of a steep mountain. This paper investigates the role of wind speed and wind shear for the formation of banner clouds. Large-eddy simulations are performed to simulate the flow of dry air past an idealized pyramid-shaped mountain. The potential for cloud formation is diagnosed through the Lagrangian vertical parcel displacement, which in the case of a banner cloud shows a plume of large values in the lee of the mountain. In addition, vortical structures are visualized through streamlines and their curvature. A series of sensitivity experiments indicates that both the flow and the banner cloud occurrence are lar…
Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Background The identification of appropriate biomarkers is essential to support important clinical decisions in patients with prostate cancer. The aim of our study was a systematic bioinformatical analysis of the mRNA expression of all genes available for the prostate adenocarcinoma cohort of The Cancer Genome Atlas (TCGA), regarding their potential prognostic and diagnostic role. Methods The study cohort comprises 499 patients (TCGA prostate cancer cohort). mRNA expression data were available for approx. 20,000 genes. The bioinformatical statistical pipeline addressed gene expression differences in tumor vs. benign prostate tissue (including gene set enrichment analysis, GSEA) in samples f…
Additional file 7: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S6 Top 50 genes with statistically significant and independent association with biochemical recurrence-free survival in multivariate Cox regression analysis (dichotomization using median) in patients with prostate cancer. Estimates of their perspectivity for further research are provided. (PDF 65 kb)
Cluster Analysis Tailored to Structure Change of Tropical Cyclones Using a Very Large Number of Trajectories
AbstractMajor airstreams in tropical cyclones (TCs) are rarely described from a Lagrangian perspective. Such a perspective, however, is required to account for asymmetries and time dependence of the TC circulation. We present a procedure that identifies main airstreams in TCs based on trajectory clustering. The procedure takes into account the TC’s large degree of inherent symmetry and is suitable for a very large number of trajectories . A large number of trajectories may be needed to resolve both the TC’s inner-core convection as well as the larger-scale environment. We define similarity of trajectories based on their shape in a storm-relative reference frame, rather than on proximity in …
Additional file 6: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S5 Full results of the multivariate Cox regression analysis for single genes. (TXT 1949 kb)
Additional file 3: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S2 Full results of Gene Set Enrichment Analysis (GSEA) for tumor vs normal tissue using Gene Ontology Biological Processes database. (TXT 131 kb)
Additional file 2: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S1 Pairwise comparison of the gene expression of normal and tumor tissue using negative binomial generalized log-linear model and correction for false discovery rate (FDR). (TXT 2100 kb)
Additional file 5: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S4 Correlation between ISUP histological grade group of the tumor (dichotomized as high-grade, ≥4 + 4, vs low-grade tumors) and mRNA expression of single genes. Correlation analysis for ISUP grade groups (Groups 1–5) is provided in parallel for comparison. Delta of Pearson r correlation levels is calculated for these 2 different settings. (TXT 2104 kb)
Additional file 4: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S3 Correlation between ISUP histological grade group of the tumor (Grade groups 1â 5) and mRNA expression of single genes, univariate Cox-regression analysis with biochemical recurrence as an endpoint. Full list of genes (nâ =â 17,681). (TXT 3078 kb)
Additional file 8: of Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Table S7 Results of the multivariate Cox regression analysis for single genes separately for patients of ISUP grade groups 2â 5. (TXT 1940 kb)