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DNA methylation has been identified to be widely associated to complex diseases. Among biological platforms to profile DNA methylation in human, the Illumina Infinium HumanMethylation450 BeadChip (450K) has been accepted as one of the most efficient technologies. However, challenges exist in analysis of DNA methylation data generated by this technology due to widespread biases. Here we proposed a...
Pancreatic cancer is the fourth most common cause of cancer-related deaths across the globe and it is one of the most difficult cancer types to recognize early. Early diagnosis of pancreatic cancer is crucial to increase survival for patients. In this study, it was tried to be estimated that persons were pancreatic cancer or healthy using microarray gene expression profile. In accordance with this...
Aberrant DNA methylation has long been implicated in cancers. In this letter, we present a highly discriminative DNA methylation biomarker for non-small cell lung cancers (NSCLCs) and 14 other cancers. Based on 69 NSCLC cell lines and 257 cancer-free lung tissues, we identified a CpG island in SCT gene promoter, which was verified by qMSP experiment in 15 NSCLC cell lines and three immortalized human...
Patients infected human papillomavirus (HPV) is increasing all over the world, in particular the community of woman. Microarray-in-a-tube system is a novel method of integrating polymerase chain reaction (PCR) with the microarray technique and a simple and high-throughput detection system. In this work, the microarray-in-a-tube system used in the function of detection human papillomavirus genotypes...
One of today's most important scientific research topics is discovering the genetic links between cancers. This paper contains the results of a comparison of three different cancers (breast, colon, and lung) based on the results of feature selection techniques on a data set created from DNA micro array data consisting of samples from all three cancers. The data was run through a set of eighteen feature...
This study developed a method to identify disease-correlated pathways by integrating copy numbers (CN) and gene expression (GE). To evaluate the correlation between CN and GE, a suitable window size was assessed by simulation. Gene Set Enrichment Analysis (GSEA) was utilized to identify the possible pathways by CN, GE, and their correlations, respectively. Each of those enriched pathways was further...
Ovarian cancer is the leading cause of death in gynecological cancers. Carboplatinum-based therapy is the standard treatment choice for ovarian cancer. However, a majority of the patients develop resistance to carboplatinum fairly rapidly hence there is a clinical need for early predictors of carboplatinum resistance. While there are a few indicative gene markers, they have poor sensitivity and specificity...
Chloroethylnitrosoureas (CENUs) were an important family of anticancer agents in the clinical treatment of human malignancies. Several lines of evidences indicated that their cytotoxicity was related to the interstrand crosslink of DNA. In this study, a method for the determination of DNA crosslink was established using real-time fluorescence quantitative PCR. The DNA crosslink ratio induced by two...
An electrochemical DNA biosensor for the detection of carcinoembryonic antigen-related cell adhesion molecule (CEACAM5), a specific tumor marker for colorectal cancer, is presented. The biosensor based on microelectronicmechanical systems (MEMS) technology, consists of a three electrode configuration where the working electrode is a gold thin-film. The immobilization of the previously designed DNA...
Disease diagnosis at an early stage requires the availability of inexpensive platforms which can accurately and rapidly analyze a wide panel of biomarkers, genomic biomarkers in particular. Genetic biomarkers are typically detected through recognition of DNA hybridization events, which is typically performed using DNA microarrays, requiring overnight incubation times, and bulky and costly optical...
The paper systematically presents how to discover useful information based on the DNA microarray expression data collected from mouse experiments for the leukemia research. The BCR-ABL oncogene is the cause of Ph+ leukemia. The BCR gene, on chromosome 22, breaks either at exon 1, exon 12/13, or exon 19 and fuses to the c-ABL gene on chromosome 9 to form, respectively, three types of BCR-ABL chimerical...
Nanomedicine is the medical diagnosis, monitoring and applying treatment at the level of single molecules or molecular assemblies that provide structure, control, signals, homeostasis, and motility in living cells. Quantum dots (QDs) are nanometer-sized fluorescent probes suitable for advanced biological imaging. The nanotechnology will be very useful for the drug delivery and diagnostic approach...
Microarray technology is a powerful biotechnology tool which allows researchers to simultaneously evaluate the expression of thousands of genes, if not the entire expressed genome, of an organism. Measures of gene expression are determined by the differential hybridization of labeled mRNA from experimental samples to DNA probes affixed to the array. The accuracy of these measurements is influenced...
An anticancer drug dacarbazine (DTIC) was immobilized on a glassy carbon electrode (GCE) by using electrochemical oxidation method. Then the DTIC-modifled GCE was utilized as a stable functional monolayer to further associate with DNA bases and the different blocking effects on the redox reaction of Fe(CN)63- were observed on the different DNA base associated DTIC/GCE, where much bigger blocking...
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