. Precisely predicting cancer is crucial for cancer treatment. Gene expression profiles make it possible to analyze patterns between genes and cancers on the genome-wide scale. Gene expression data analysis, however, is confronted with enormous chall...
BACKGROUND: Objectives of this work are to (1) present an ontological framework for the TNM classification system, (2) exemplify this framework by an ontology for colon and rectum tumours, and (3) evaluate this ontology by assigning TNM classes to re...
IEEE/ACM transactions on computational biology and bioinformatics
Nov 1, 2016
MicroRNAs (miRNAs) are known as an important indicator of cancers. The presence of cancer can be detected by identifying the responsible miRNAs. A fuzzy-rough entropy measure (FREM) is developed which can rank the miRNAs and thereby identify the rele...
Because of the limited number of tumor markers in veterinary medicine, there is need for identifying new markers. Ki-67 has been investigated as a tissue marker of malignant alterations. We hypothesized that Ki-67 would also be measurable in serum an...
MOTIVATION: Chemotherapy or targeted therapy are two of the main treatment options for many types of cancer. Due to the heterogeneous nature of cancer, the success of the therapeutic agents differs among patients. In this sense, determination of chem...
Annals of the New York Academy of Sciences
Sep 14, 2016
Over half of cancer patients receive radiotherapy (RT) as partial or full cancer treatment. Daily quality assurance (QA) of RT in cancer treatment closely monitors the performance of the medical linear accelerator (Linac) and is critical for continuo...
Methods are needed to reliably prioritize biologically active driver mutations over inactive passengers in high-throughput sequencing cancer data sets. We present ParsSNP, an unsupervised functional impact predictor that is guided by parsimony. ParsS...
Medical decision making : an international journal of the Society for Medical Decision Making
Aug 19, 2016
OBJECTIVE: To design a precision medicine approach aimed at exploiting significant patterns in data, in order to produce venous thromboembolism (VTE) risk predictors for cancer outpatients that might be of advantage over the currently recommended mod...
Pan-cancer analysis can identify cell- and tissue-specific genomic loci and regions with underlying biological functions. Here we present an online curated DNA Methylation Annotation Knowledgebase, DMAK, which includes the pan-cancer analysis results...
Incorporation of pathway knowledge into microarray analysis has brought better biological interpretation of the analysis outcome. However, most pathway data are manually curated without specific biological context. Non-informative genes could be incl...
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