Strong Southward Transport Events Due to Typhoons in the Taiwan Strait

Transport through the Taiwan Strait under the influence of five typhoons was investigated using both buoy observations and numerical model simulations during the period of 27 August to 5 October 2005. The results show that the effects of typhoons on the Taiwan Strait and its adjacent sea area caused strong southward transport events in the Taiwan Strait, which changed the direction of the Taiwan Strait northward transport temporarily. Typhoon-generated local wind stress and/or along-strait water level gradient were the direct driving factors in these southward transport events. The numerical results show that the Coriolis force made a negative contribution to these events and the contribution of the along-strait momentum gradient was insignificant

Fast simultaneous detection of K-RAS mutations in colorectal cancer

<p>Abstract</p> <p>Background</p> <p><it>RAS </it>genes acquire the most common somatic gain-of-function mutations in human cancer, and almost all of these mutations are located at codons 12, 13, 61, and 146.</p> <p>Methods</p> <p>We present a method for detecting these <it>K-RAS </it>hotspot mutations in 228 cases of colorectal cancer. The protocol is based on the multiplex amplification of exons 2, 3 and 4 in a single tube, followed by primer extension of the PCR products using various sizes of primers to detect base changes at codons 12, 13, 61 and 146. We compared the clinicopathological data of colorectal cancer patients with the <it>K-RAS </it>mutation status.</p> <p>Results</p> <p><it>K-RAS </it>mutation occurred in 36% (83/228) of our colorectal cancer cases. Univariate analysis revealed a significant association between <it>K-RAS </it>mutation at codon 12 of exon 2 and poor 5-year survival (p = 0.023) and lymph node involvement (p = 0.048). Also, <it>K-RAS </it>mutation at codon 13 of exon 2 correlates with the size of the tumor (p = 0.03). Multivariate analysis adjusted for tumor size, histologic grade, and lymph node metastasis also indicated <it>K-RAS </it>mutations at codon 12 and 13 of exon 2 correlate significantly with overall survival (p = 0.002 and 0.025). No association was observed between codon 61 and 146 and clinicopathological features.</p> <p>Conclusion</p> <p>We demonstrated a simple and fast way to identify <it>K-RAS </it>mutation.</p

Hemagglutinin protein of Asian strains of human influenza virus A H1N1 binds to sialic acid--a major component of human airway receptors

Hemagglutinin (HA) protein plays an important role in binding the influenza virus to infected cells and therefore mediates infection. Deposited HA sequences of 86 Asian strains of influenza A (H1N1) viruses during the first outbreak were obtained from the NCBI database and compared. Interaction of the HA protein of influenza A (H1N1) virus with the human sialic acid receptor was also studied using bioinformatics. Overall, not more than three single-point amino acid variants/changes were observed in the HA protein region of influenza A (H1N1) virus from Asian countries when a selected group sequence comparison was made. The bioinformatics study showed that the HA protein of influenza A (H1N1) binds to the sialic acid receptor in human airway receptors, possibly key to air-borne infection in humans

Application of genefishing discovery system on differential gene expression study for prokaryotic system

GeneFishing Discovery is a system applied on disease and gene related research for eukaryotes and the starting material for the study could be either total RNA or mRNA. In this study we demonstrate the use of this discovery system for a prokaryotic system by modifying the eukaryotic protocol using the poly (A)-tailing approach. As an example we compared the gene expression pattern of two closely related species of bacteria under the same family (Burkholderia thailandensis and Burkholderia cepacia) with satisfactory results

Identification of Burkholderia pseudomallei Mimotope using Phage display approach

This study reportsa sequential biopanning against serum obtained from a patient infected with B. pseudomallei using a phage display peptide library. A peptide bearing the consensus sequence NKNSFDAWLQSF was obtained after 3 rounds of biopanning and it partly resembles the sequence 35FDAWLAAQEF44 of B. pseudomallei site-specific recombinase, which is a phage integrase family protein. Overall, the mimotope obtained in this study could be a potential candidate for the development of a cost effective diagnostic test or vaccine in the future

Hydrological modelling with a dynamic neural fuzzy inference system

Dynamic Evolving Neural-Fuzzy Inference System (DENFIS) is a Takagi-Sugeno-type fuzzy inference system for online learning which can be applied for dynamic time series prediction. Data from Heshui catchment (2,275 km2) which is rural catchment in China, comprising daily time series of rainfall and discharge from January 1, 1990 to January 21, 2006 were analyzed. Rainfall and discharge antecedents were the inputs used for the DENFIS and ANFIS models and the output was discharge at the present time. DENFIS model results were compared with the results obtained from the physically-based University Regina Hydrologic Model (URHM) and an Adaptive Network-based Fuzzy Inference System (ANFIS) which employs offline learning. Our analysis shows that DENFIS results are better or at least comparable to URHM, but almost identical to ANFIS