Information Mining projects are a special type of Software Engineering projects with the objective of extracting non-trivial knowledge from available data repositories. Information mining projects share similar proble...
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Clustering of gene expression data simplifies subsequent data analyses and forms the basis of numerous approaches for biomarker identification, prediction of clinical outcome, and personalized therapeutic strategies. ...
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Clustering of gene expression data simplifies subsequent data analyses and forms the basis of numerous approaches for biomarker identification, prediction of clinical outcome, and personalized therapeutic strategies. The most popular clustering methods such as K-means and hierarchical clustering are intuitive and easy to use, but they require arbitrary choices on their various parameters (number of clusters for K-means, and a threshold to cut the tree for hierarchical clustering). Human disease gene expression data are in general more difficult to cluster efficiently due to background (genotype) heterogeneity, disease stage and progression differences and disease subtyping;all of which cause gene expression datasets to be more heterogeneous. Spectral clustering has been recently introduced in many fields as a promising alternative to standard clustering methods. The idea is that pairwise comparisons can help reveal global features through the eigen techniques. In this paper, we developed a new recursive K-means spectral clustering method (ReKS) for disease gene expression data. We benchmarked ReKS on three large-scale cancer datasets and we compared it to different clustering methods with respect to execution time, background models and external biological knowledge. We found ReKS to be superior to the hierarchical methods and equally good to K-means, but much faster than them and without the requirement for a priori knowledge of K. Overall, ReKS offers an attractive alternative for efficient clustering of human disease data.
The continuous devices shrinking has introduced new challenges to integrated circuit design, mainly to deal with the overall yield loss (Beckett 2002). Designers start to take into account process variability impact i...
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The continuous devices shrinking has introduced new challenges to integrated circuit design, mainly to deal with the overall yield loss (Beckett 2002). Designers start to take into account process variability impact in the early design stages to successful deal with yield loss. Process variability have a critical effect on integrated circuits increasing power consumption to out of design specifications, accelerating circuit degradation or introducing erroneous circuit functionality. Routing ... This work proposes two main contributions to improve yield: explore regular detailed routing reducing the number of vias and explore new approaches of basic cells in a regular layout synthesis.
Aim:Overexpression of histone deacetylases(HDACs) were observed in many types of cancers,including colorectal cancer(CRC).Therefore,small molecules targeting HDACs may have benefits in developing new anticancer drugs ...
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Aim:Overexpression of histone deacetylases(HDACs) were observed in many types of cancers,including colorectal cancer(CRC).Therefore,small molecules targeting HDACs may have benefits in developing new anticancer drugs for CRC ***,we investigated the anticancer activity of a novel synthetic HDAC inhibitor,MPT0G028,in CRC in vivo and in ***:Anticancer activity was evaluated by SRB and MTT in HCT-116 and HT-29 CRC cell *** cycle distribution was accessed by flow cytometry and protein expression was examined by Western *** activities were measured by fluorogenic HDAC assay ***-116 xenograft model was used to examine the antitumor activity in vivo.
Aim:Patients with advanced pancreatic cancer are associated with veous thromboembolism (VTE).tissue factor(TF) is a biomarker in initiation of thrombosis and cancer *** aim of this study was to investigate the patholo...
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Aim:Patients with advanced pancreatic cancer are associated with veous thromboembolism (VTE).tissue factor(TF) is a biomarker in initiation of thrombosis and cancer *** aim of this study was to investigate the pathological role of TF/ protease-activated receptor-2(PAR-2) signaling in pancreatic cancer. Methods:First,effects of PAR-2 activation on gene expression investigated by microarray ***,PAR-2-mediated genes were confirmed by RT-PCR and Western blot ***-A levels were detected by a ELISA *** in vitro angiogenesis assay,HUVECs proliferation was measured by crystal violet staining;tube formation was examined by Matrigel tube formation ***:According to the results of microarray assay,TF/PAR-2 signaling regulated an oncogenic pathway through increasing both HIF-lαand HIF-2α,resulting in enhanced
Reusable and portable evanescent wave biosensor for rapid, sensitive and highly selective direct detection of adenoviruses was developed. Here, specific antibody for the hexon protein of the virus was used as a recogn...
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Aim:The role of histone deacetylases(HDACs) and the potential of these enzymes as therapeutic targets for cancer is an area of rapidly expanding *** addition to histones,HDACs have many nonhistone protein substrates w...
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Aim:The role of histone deacetylases(HDACs) and the potential of these enzymes as therapeutic targets for cancer is an area of rapidly expanding *** addition to histones,HDACs have many nonhistone protein substrates which have a role in regulation of gene expression,cell proliferation,cell migration,cell death, and *** this study,the anti-angiogenic effects of a novel synthetic HDAC inhibitor,MPT0G013,in HUVECs were ***:Crystal violet assay,flow cytometric analysis,fluorogenic HDAC activity assay,Western blotting assay,tube formation assay,migration assay,Xenograft mouse model were ***:This study first demonstrates that MPT0G013 induced acetylation
Increasing concentrations of selenium oxoanions in the environment are placing many animals at risk for reproduction failure and deformities. The understanding of binding mechanisms of selenium oxoanions to iron and m...
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Increasing concentrations of selenium oxoanions in the environment are placing many animals at risk for reproduction failure and deformities. The understanding of binding mechanisms of selenium oxoanions to iron and manganese based oxide minerals could lead to enhanced understanding of selenium mobility in the environment. In this study, the binding mechanisms of selenium oxoanions, selenite and selenate, to non microwave-assisted and microwave-assisted synthetic Fe3O4, Mn3O4, and MnFe2O4 nanomaterials were investigated through the use of X-ray absorption spectroscopy. The X-ray absorption near-edge structure (XANES) spectroscopy studies revealed the oxidation state of selenite and selenate remains the same after binding occurs to all nanomaterials in pH 2, 4, or 6 environments. The binding modes of selenite and selenate were determined to be bidentate binuclear through use of Extended x-ray absorption fine structure (EXAFS) and were independent of nanomaterials, synthetic technique, and pH.
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