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Wednesday, July 23, 2014
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Application of genetic programming in analysis of quantitative gene expression profiles for identification of nodal status in bladder cancer
Anirban P. Mitra, Arpit A. Almal, Ben George, David W. Fry, Peter F. Lenehan, Vincenzo Pagliarulo, Richard J. Cote, Ram H. Datar, William P. Worzel

Nodal involvement in bladder cancer is an independent indicator of prognosis. This study employed an iterative machine learning process called genetic programming on quantitative expression values of 70 genes to classify primary urothelial carcinoma samples into those associated with or without nodal metastasis. The generated rules showed a strong predilection for ICAM1, MAP2K6 and KDR resulting in gene expression motifs that cumulatively suggested a pattern ICAM1>MAP2K6>KDR for node positive ca

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How to Perform High Throughput siRNA Transfection
Mark Hewitson, Hanno Hermann and Neil Benn

We demonstrate the optimization of siRNA transfection process for time and costs in a high throughput application with two independent measurements of the RNAi effect: The visual monitoring of Eg5 expression and the quantitative PCR measurement of GAPDH mRNA after transfection of Hela cells. The results show, that 1 wash cycle is sufficient for the removal of any remnants of the transfection complex from disposable tips, making the tips re-usable.

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Quantification of siRNA by a Novel Competitive-qPCR Method
Wei-li, Liu., Mark Stevenson and Len Seymour

We have developed a competitive qPCR method in which siRNA competes with a homologous forward primer to bind template DNA, giving siRNA concentration dependent inhibition. The addition of E6-siRNA to cqPCR led to inhibition of amplification in a linear concentration-dependent manner, with as little as 200pg of siRNA capable of being detected. Irrelevant siRNA had no effect on amplification confirming specificity

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Quantification of siRNA by a Novel Competitive-qPCR Method
Wei-li, Liu., Mark Stevenson and Len Seymour

We have developed a competitive qPCR method in which siRNA competes with a homologous forward primer to bind template DNA, giving siRNA concentration dependent inhibition. The addition of E6-siRNA to cqPCR led to inhibition of amplification in a linear concentration-dependent manner, with as little as 200pg of siRNA capable of being detected. Irrelevant siRNA had no effect on amplification confirming specificity

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The Silencing of Multidrug Resistance-Associated Protein 5 by siRNA Complexes
M.Malinen, E.Mannermaa, T.Ryhänen, E.Kuusela, M.Häkli, M.Yliperttula and A.Urtti

The purpose is to study the role of multidrug resistance-associated protein 5, MRP5 in drug metabolism in human retinal pigment epithelium (RPE). RPE forms the outer part of blood-retinal barrier (BRB) which restricts movements of solutes from systemic bloodstream to the neural retina. The efflux protein, MPR5 is expressed in RPE but its functions are mainly unknown. SiRNA will be tested as a tool to clarify the role of MRP5.

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Caveolin-1 Expression as a Possible Biomarker in Pancreatic Cancer Diagnosis
C. Tanase, E. Raducan, L. Albulescu, E. Codorean, M.I. Nicolescu, D.I. Popescu, M.L. Cruceru and A.C. Popa

Caveolin1 (Cav-1) function either as a tumor supressor or as a promoter of metastasis. Overexpresion of cav-1 was correlated with: tumoral grading, proliferration markers (Ki67, p53), serum tumor markers (CEA, CA19.9) and angiogenic markers (VEGF, bFGF).

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New Transcripts Identified for S. cerevisiae, S. pombe and Drosophila Using Novel cDNA Cloning
Les Hoffman, Janina Gornemann, Erica Rodriguez and David Brow

Unannotated transcripts, including antisense, noncoding, intergenic, and potential regulatory RNAs, were identified in three different eukaryotic model organisms by cDNA cloning and sequencing. A rapid double-stranded cDNA generation system will be described.

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Preliminary Report: The Geriatric Propamed Study: Prospective pharmacopgenetics in geriatrics
Dr LS Griffith, Dr L Chialda and Dr A Pahl

In a worldwide first proscpective phamacogenetic study preliminary results show reduction of adverse drug reactions and hospitilisation stays for geriatric patients after pharmacogenetic testing and medication interaction analysis to fit the medicine to the patient.

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Expression Profiling of Receptor-like Cytoplasmic Protein Kinase (class VI) of Arabidopsis
Manuela Elena Jurca and Attila Feher

Gene expression pattern of 14 members of RLCK class VI in Arabidopsis is described. qRT-PCR was used to determine the transcript levels in the various organs of plant as well as under a series of abiotic stress/hormone treatments in seedlings.

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Showing Results 61 - 70 of 84
Scientific News
Determination of Arabidopsis Thaliana Telomere Length by PCR
Researchers have designed two telomeric degenerated primers that amplify Arabidopsis telomeres by MMQPCR.
Methods for Multiplex Template Sampling in Digital PCR Assays
This article presents Multiplex Template Sampling, an alternative strategy to effectively increase template concentrations in dPCR analysis.
Detection of Large Expansions in Myotonic Dystrophy Type 1
The aims of this study were to verify the validity of triplet primed-PCR for the diagnosis of patients presenting with DM1 clinical findings and to simplify the testing procedure.
The 2014 Annual MO BIO Microbiome Awards, Offering More Than $10,000 of Prizes
The Microbiome Awards aim to provide young, extraordinary scientists with funding and recognition to carry out scientific work in the field of microbiome research.
Genetic Discovery Could Aid Diagnosis of Childhood TB
A distinctive genetic 'signature' found in the blood of children with TB offers new hope for improved diagnosis of the disease.
Genotoxicity Evaluation of Acephate and Profenofos by the PCR-RFLP Assay
The rampant use of organophosphorus insecticides has created a chemical environment which is proving harmful to the living system.
Strong Link Between Obesity and 'Carb Breakdown' Gene
Findings suggest that dietary advice may need to be tailored to individual's digestive system.
An Alternative Suite of Universal Primers for Genotyping in Multiplex PCR
The new set of universal primers for multiplex genotyping were proven to be efficient and reliable in varied species.
DNA Polymerase Preference Determines PCR Priming Efficiency
Researchers use high throughput sequencing to systematically demonstrate and characterize DNA polymerase priming bias.
Droplet Digital PCR Enables Measurement of Potential Cancer Survival Biomarker
Study paves the way for further research into the role of TIL quantification in immunotherapy and as a cancer survival predictor.
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