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The recent success of genome-wide association (GWA) studies has greatly expanded our understanding of many complex diseases by delivering previously unknown loci and genes. A large number of GWAS datasets have already been made available, with more being generated. To explore the underlying moderate and weak signals, we recently developed a network-based dense module search (DMS) method for identification...
Thousands of people die every year because of cancer due to limitation of medical sources and unable to use the existing sources effectively. Loss of patients can be reduced by using the numerical (quantitative) techniques in the system of Medical and Health. Cancer is a genetic disease which is developed by the abnormal cell increase and cell growth as a result of DNA damage and cells being out of...
Structural variation (SV) has been reported to be associated with numerous diseases such as cancer. With the advent of next generation sequencing (NGS) technologies, various types of SV can be potentially identified. We propose a model based clustering approach utilizing a set of features defined for each type of SV event. Our method, termed SVMiner, not only provides a probability score for each...
Mitochondria DNA (mtDNA) plays an important role in both aging-associated degenerative diseases and cancers. In this study, a new microfluidic system integrating functional components including a mtDNA extraction module, a polymerase chain reaction (PCR) module and a micro-capillary electrophoresis (MCE) module has been developed. A new approach to vertically integrate these three modules has been...
Traditionally, most researches in development of new drug target focus on relationship between a target protein and a related compound by experimental or computational approaches. In addition to the translational level, it is useful tool control disease at the transcriptional level, if we identify transcription factors that regulate expression of target proteins. We introduce new methodology that...
Glioblastoma is the most aggressive form of brain cancer. Transcriptional aberrations may play an important role in etiology of glioblastoma, which might be caused through genomic alterations: nucleotide mutation, copy number variation, DNA mythelation. Here, we explored another possible mechanism involving cooperative deregulation of microRNAs (miRNAs) and transcription factors (TFs). Several miRNA-TF...
Atherosclerosis is a multifactorial disease involving a lot of genes and proteins recruited throughout its manifestation. The present study represents an integrative effort, coupling the results of a bioinformatic analysis based on microarray data of atherosclerotic aortic lesions of apoE knockout mice, a model widely used in atherosclerosis research, together with gene expression measurements of...
Breast cancer is the one of the most leading diseases and cause of death in the world. 21% of females diagnosed with breast cancer in 2009 did not survive. Hence, cancer therapy requires a new and novel approach to treat them. Over the last two decades, electroporation, which is the process by which external electrical pulses are applied to facilitate the transport of drugs into cells, is gaining...
The causation of cancer often involves the joint deregulation of multiple biological processes. Thus, it is interesting to extract multi-function features of cancer genes and study their functional coordination involved in tumorigenesis. Here, based on Gene Ontology, we proposed a heuristics strategy to extract multi-function features which are significantly overrepresented with cancer genes. We showed...
The identification of disease microRNAs is vital for understanding the pathogenesis of diseases at the molecular level, and is critical for designing specific molecular tools for diagnosis, treatment and prevention. However, one major issue in microRNA studies is the lack of bioinformatics methods to accurately predict microRNA-disease associations. Herein, we proposed an approach to infer microRNA-disease...
The sensitive detection of molecular biomarkers in clinical samples is crucially important in disease diagnosis. In this study, we propose and develop aptamer microarray platform combined with novel sol-gel technology to identify low abundance targets from complex solution, such as serum. Due to nanoporous structure of sol-gel, it entraps a large number of active aptamers and allows aptamers to bind...
This project focuses on the improvement of NDV production technology and innovation of the NDV vaccine preparation process with cell culture technology. Methods: To use primary chick embryo cell culture system in preparation of NDV anti-tumor vaccine. Results:In the new vaccine development process, the focused on maintaining and improving NDV titer while reducing the residual bovine serum. So that...
The identification of significant disease-related genes and networks is an important issue in understanding underlying mechanisms of cells. We integrate phenotype networks, protein networks and efficiently utilize gene expression data to identify human disease networks. We use prostate cancer data as our test domain. In comparison with statistical methods such as t-test and Wilcoxon test, our method...
The identification of disease microRNAs is vital for understanding the pathogenesis of diseases at the molecular level, and is critical for designing specific molecular tools for diagnosis, treatment and prevention. However, one major issue in microRNA studies is the lack of bioinformatics methods to accurately predict disease-related microRNAs. Herein, we proposed an approach for prioritizing disease-related...
AIM: To study the expression of survivin, an inhibitor of apoptosis protein, in human gastric carcinomas and gastric carcinoma models of rats. METHODS: With the method of immunohisto-chemical staining, we studied the expression of survivin in 20 cases of chronic gastritis and 56 cases of gastric carcinomas. We used N-methyl-N'nitro-N-nitrosoguanidine (MNNG) and high dose sodium-chloride diet to induce...
The identification of effective biomarkers for preventive intervention or targeted therapies will increase survival rate of cancer patients dramatically. However, the unclear molecular mechanism of carcinogenesis still blocks the discovery process of effective cancer biomarkers. Network-based analyses have been introduced into computational biomarker discovery for many years. The random walks ranking...
Experimental methods such as high-throughput screening have widely used for discovery of the new drug targets. We employed an idea that disease-related proteins tend to be work as an important factor for architecture of the disease network in this study. To determine new drug target proteins, we proposed a new methodology that analyzes the human disease network by using informational technology. We...
Histopathological examination is a powerful method for prognosis of major diseases such as breast cancer. Analysis of medical images largely remains the work of human experts. Current virtual microscope systems are mainly an emulation of real microscopes with annotation and some image analysis capabilities. However, the lack of effective knowledge management prevents such systems from being computer-aided...
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