|Target length effect on sensitivity and specificity of oligonucleotide microarrays: Advantages of a modified PCR based labelling method over the dendrimer technology.|
Abdullah Gibriel1*, Walter Kolch2 and Andrew Pitt1,3
Several methods have been developed for target labelling to enable DNA microarray quantification without taking careful consideration for target length effect. This report highlights the importance of choosing the optimum target length that would ensure specificity without compromising sensitivity of the assay. It also shows the advantages of using the modified PCR method over other methods in generating labelled amplicons of the desired lengths to maximize hybridization efficiency.
|Electrochemical Microfluidic Biosensor for E.coli Detection|
Mohammadali Safavieh, Minhaz Uddin Ahmed, and Mohammed Zourob
Microfluidic electrochemical biosensor based on Loop-mediated Isothermal Amplification (LAMP) was developed for detection and quantification of E.coli. The electrochemical detection was achieved using Hoechst 33258 redox molecule and linear sweep voltametry (LSV). Here, we detect and quantify 48 CFU/ml of bacteria in 35 min in LB media and urine samples. This microfluidic chip has great potential to be used as a point of care diagnostic (POC) device for clinical application.
|Identification of novel autoantigensin patients with liver autoimmune diseases by Protein MicroArray|
C. Zingaretti1, M. Arigò1, A. Cardaci1, A. Sinisi1, L. Muratori3, P. Colombatto4, F. Bonino2, P. Invernizzi5, , A.L. Zignego6 MC. Crosti1, M. Moro1, J. Geginat1, Pagani M.1, R. De Francesco1, S. Abrignani1. & M. Bombaci1
The characterization of autoimmune disease-specific biomarkers are of primary importance for the development of diagnostic tools and the comprehension of pathogenetic mechanisms leading to autoimmunity. To this aim a protein microarray was employed to analyze serum samples from patients with autoimmune hepatitis (e.g. AIH & PBC) and of healthy as controls. A panel of autoantigens able to discriminate among the groups of patients was identified for potential use as biomarkers.
|GALAS Modeling Methodology Applications In The Prediction Of Drug Metabolism Related Properties|
Remigijus Didziapetris, Justas Dapkunas, Andrius Sazonovas and Pranas Japertas
Analytical identification of metabolites for a drug candidate is usually a time consuming and low-throughput task and is performed only at the later phases of drug development. Therefore the possibility to predict possible sites of human liver microsomal (HLM) metabolism using in silico techniques would be a very attractive feature for any medicinal chemist.
|Effective Use of In-Silico Tools in Lead Optimization|
Pranas Japertas, Andrius Sazonovas and Kiril Lanevskij
Of all the challenges facing medicinal chemists in general, one of the most significant must be transforming an active molecule into a viable drug. Lead optimization efforts are guided by a combination of factors, such as potency, ease of synthesis, patentability concerns, specific synthetic constrains of the interaction with the target, as well as the lead’s toxicity and ADME properties.
|miREC: A database of miRNAs involved in endometrial cancer|
Benjamin Ulfenborg, Sanja Jurcevic, Angelica Lindlöf, Karin Klinga-Levan, Björn Olsson
The miREC database integrates public data about miRNAs and their target genes involved in the development of EAC in human, collected from recent literature. In future versions the database will be complemented with information derived by analyzing our in-house data and new published data by other researchers. The miREC database is the first database that focuses on integrating all available information about genes and miRNAs involved in endometrial cancer.
|Visualizing the Dynamic Epigenome|
Lydia Steiner (1,2), Thimo Rohlf (2), Joerg Galle (2), Hans Binder (2), Lydia Hopp (2), Henry Wirth (2), Sonja Prohaska (1,2)
A method is presented to visualize genome-wide information from epigenetic data. It is capable to integrate additional information. Applied to mouse data consisting of H3K4, H3K27, and H3K9 trimethylation for 3 different celltypes, the dynamic behavior and interplay was investigated.
|Evaluation of bactericidal efficacy of sulfur nanoparticles (SNPs) against multidrug resistant isolates of Escherichia coli and Klebsiella pneumoniae|
Samrat Roy Choudhury*, Saheli Pradhan, Indrani Roy and Arunava Goswami
Bactericidal efficacy of engineered sulfur nanoparticles
|MicroRNA expression in normal and malignant prostate tissues|
In this study the aim was to identify a miRNA expression signature that could be used to separate between normal and malignant prostate tissues. Nine miRNAs were found to be differentially expressed and they could be used to separate between the normal and malignant tissues. A cross-validation procedure confirmed the generality of this expression signature, showing an accuracy of 85%.