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Thursday, February 23, 2012
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Using Next-Gen Sequencing to Uncover Pat...
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Featured Product - Agencourt Genfind v2
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Featured Product - GeneAmp® PCR System 9700
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Webcasts
Webcast - Beyond Glucose: The Move Towards System Integration in BiosensorsBeyond Glucose: The Move Towards System Integration in Biosensors
Dr Jeff Newman, Cranfield University, speaking at Advances in Biosensors and Biodetection 2011.
Webcast - Recent Advances in Detection and BiosensorsRecent Advances in Detection and Biosensors
Professor Christopher R. Lowe, University of Cambridge, speaking at Advances in Biosensors and Biodetection.

Market Reports
Personalized Medicine Market - Advances in Human Genomics and Proteomics to Challenge Traditional Therapeutics
GBI Research

The report provides key data, information and analysis of the major trends and issues in Personalized Medicine Market. The report provides a comprehensive insight into the role of Human Genomics and Proteomics to challenge traditional therapeutics.
Personalized Medicine for Cancer
GlobalData

The report is an essential source of information on the Personalized Medicine for Cancer . The report also provides insights on the companion diagnostics and marketed personalized drugs for cancer.
Biomarkers Market (Discovery Technologies, Applications & Indications) – Global Trends, Opportunities & Forecasts (2011 – 2020)
MarketsandMarkets

This Biomarkers Market research report categorizes on the basis of discovery technologies and application market across major indications; forecasting revenues and analyzing trends.
High Throughput qPCR Assay Trends
HTStec

This market report summarizes the results of HTStec’s global web-based benchmarking survey on high throughput real-time quantitative PCR (HT qPCR) assays carried out in January 2012.
Next-Gen Sequencing Trends 2011
HTStec

This market report summarizes the results of HTStec’s 2nd industry-wide global web-based benchmarking survey on next-generation sequencing (NGS) carried out in March 2011.
Biochips - Products, Applications, Technologies and End-Use Markets Growth Analysis, 2009-2015
Axis Research Mind

The report reviews the latest biochips market trends with a perceptive attempt to disclose the near-future growth prospects. An in-depth analysis on a geographic basis provides strategic business intelligence for life science sector investments. The study reveals profitable investment strategies for pharmaceutical manufacturers, biotechnology companies, laboratories, Contract Research Organizations (CROs), government organizations and many more in preferred locations.
Biomarkers in Late-Stage Clinical Trials: Applications, opportunities and activities of leading players
Business Insights

Biomarkers reduce the attrition rate of late-stage clinical trials by assessing drug potential in terms of efficacy and toxicity at the early stages of clinical development. Thus, biomarkers significantly increase productivity, lower the cost and duration of clinical trials, and help researchers complete the drug development process at a faster pace.
Epigenetics Market Trends 2011
Select Biosciences Ltd

Epigenetics research efforts are growing around the world driven by the numerous documented associations of epigenetic modifications with diseases—especially various types of cancers.
Top 10 Drug Discovery Technologies - Strategic Analysis and Global Forecasts
MarketsandMarkets

The top 10 drug discovery technologies play a vital role in the growth of the entire pharmaceutical industry as they are the key contributors in the swift introduction of blockbusters and innovative drugs. The applications of these technologies in the introduction of drugs have created significant opportunities for market growth. The slow introduction of new blockbuster drugs is a major concern which the drug development companies are catering to by using these top technologies.
Advances in the Use of Biomarkers in Biochip and Microarray Testing: Innovative Technologies, Growth Opportunities and the Future Market Outlook
Business Insights

The microarray market (estimated at $788m for 2008, including about $130m in protein arrays) is forecast to grow by 9% per annum to $1322m in 2013. Diagnostic microarrays, currently with just $39m (5% of the total), are expected to reach $187m (14%) by 2013. The leading diagnostic application at present is cancer.
Scientific News
Transcriptional and Posttranscriptional Regulation of HIV-1 Gene Expression
The transcription factors that control YAP gene expression are unknown. This study demonstrates that ß-catenin/TCF4 complexes bind a DNA enhancer element within the first intron of the YAP gene to drive YAP expression in CRC cells.
Launch of DIRECT - An Innovative Medicines Initiative Project for Personalized Medicine in Diabetes
Academia and the pharmaceutical industry working together in the fight against diabetes.
Estimation of drug-metabolizing capacity by CYP-genotyping and CYP-expression
The lack of therapeutic effect of drugs or the appearance of undesired side-effects is partly caused by differences or changes in drug metabolism. This work aims to introduce an approach of combining CYP-genotyping and CYP-phenotyping tools to estimate patients’ drug-metabolizing capacity.
Case Study Demonstrates Importance of MIQE for qPCR Data Analysis
Published by Bio-Rad Laboratories, Inc. this case study demonstrates how real-time PCR can lead to erroneous conclusions if the key steps set out in the MIQE guidelines are not followed.
Transformational Fruit Fly Genome Catalog Completed
Scientists now have a reference manual that should speed gene discoveries in everything from pest control to personalized medicine.
FDA Approves KALYDECO™ (ivacaftor), the First Medicine to Treat the Underlying Cause of Cystic Fibrosis
Vertex Pharmaceuticals announces KALYDECO approved to treat people with CF who have a specific genetic mutation.
Body Clock Receptor Linked to Diabetes in New Genetic Study
Study found that people who carry rare genetic mutations in the receptor for melatonin have higher risk of type 2 diabetes.
Pinpoint Genomics Announces Publication of Clinical Study Results in Lung Cancer
The Pinpoint Dx Lung(TM) Assay is a molecular diagnostic assay that assesses the likelihood of death after lung cancer surgery.
OGT Releases New Whitepaper for Aiding Biomarker Discovery
The new document explores the need for biomarkers as indicators of disease, and discusses the vast potential of autoantibodies as markers of early disease development.
Scripps Research Scientists Create Novel RNA Repair Technology
Discovery could aid search for Huntington’s, Spinocerebellar Ataxia, and Kennedy Disease treatments.
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Business News
OGT Signs Licensing Deal for Colorectal Cancer Biomarkers
OGT has entered into an exclusive licensing agreement with Inven2.
Lab21 Announces Appointment of Industry Expert Fraser Logue
Dr Logue joins Lab21 team as Group Director of Quality, Regulatory Affairs & Operations Excellence.
American Clinical Laboratory Association Welcomes Pathway Genomics as New Member
ACLA was created in 1971 and is committed to promoting public awareness about the value of laboratory services in preventing illness, diagnosing disease, and monitoring medical treatment.
EPI Collaborates with the University of Texas MD Anderson Cancer Center
EPI collaborates on Liquid Tissue® personalized medicine assays in lung cancer treatment.
DNAnexus Announces Strategic Alliances to Drive the Advancement of DNA-Based Medicine
Teams with top healthcare organizations Geisinger Health System and UCSF.
DTC Approach an Interesting Aspect of Genetic Testing Industry
According to a new report by RNCOS, “Global Genetic Testing Market Analysis”, the genetic testing market has witnessed a rapid growth over the past few years mainly backed by personalization of medical treatment.
OGT to Exhibit and Present at Molecular Medicine Tri-Con 2012
The conference will include an OGT presentation entitled “Integrated Biomarker Discovery: Multi-Method Approach to Enable Early Biomarker Success”, taking place on Tuesday 21st February at 15.50 in the Moscone North Convention Centre.
Stephen Zaniboni Joins Trovagene, Inc. as Chief Financial Officer
Mr. Zaniboni's experience includes raising more than $500 million through venture financing and IPO proceeds.
Recombinant Data Named Finalist in "Most Promising Company" Competition
Only software company to be nominated in the category at the Personalized Medicine World Conference 2012 (PMWC).
VistaGen Increases Its Drug Rescue Opportunities
Long-term relationship with global contract research and development organization expands to include right-of-first-offer for potential drug rescue candidates.
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Events
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ePosters
Antigen Determination in Autoimmune Hepatitis Type1
Institute of Liver and Biliary Sciences

Objectives of this project were to exploit the database in indian setting to determine nuclear antigens as target for antinuclear antibodies (ANA) in patients of autoimmune hapatitis (AIH) type1.
Is it possible to quantify and rank the quality of several lists of significant genes found with gene expression profiling by different methods?
(1) Deutsches Rheuma-Forschungszentrum (DRFZ) Berlin, Germany; (2) Rheumatology, Charité CCM Berlin Germany

High Performance Chip Data Analysis (HPCDA) improves expression profiling of Affymetrix chips via Bioretis database: you can easily use the default parameters and are sure to get the optimum of true positive results, independant of number of significant genes in your dataset. Gene List Significance Index (GLSI) quantifies quality of gene lists. With GLSI its easily judged which normalization/analyzing method gives better results. HPCDA score ranks by relevance.
Identification of novel autoantigensin patients with liver autoimmune diseases by Protein MicroArray
1Fondazione INGM, Istituto Nazionale Genetica Molecolare, Milan; 2Fondazione IRCCS Ospedale Maggiore Policlinico, Milano; 3Policlinico Sant’Orsola, Bologna; 4Azienda Ospedaliera Universitaria Pisana,

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.
Intronic polymorphisms in Daucus carota AOX2b generate putative genotype specific miRNA
University of Évora

A study in the carrot alternative oxidase gene DcAOX2b from several individual plant genotypes of D. carota cv. Rotin revealed the frequent occurrence of intron length polymorphisms (ILPs). Here we will present an in silico analysis performed in order to identify putative miRNA sites at three different sizes of intron 1. The overall research approach aims to develop functional marker candidates for carrot plant breeding.
Gene expression analysis of CD14+ monocytes immunomagnetically separated directly from whole blood: adaptation of protocols towards clinical trial requirements
1Miltenyi Biotec GmbH

Peripheral blood is widely used as starting material for biomarker discovery and validation using molecular biology technologies. The vast majority of currently published transcriptome data is based on RNA derived either from stabilized whole blood or peripheral blood mononuclear cells (PBMCs). Here, gene expression profiling studies and SOPs for fast, easy and specific manual or automated isolation of monocytes directly from whole blood are being described.
Integrated In Silico Analysis of NGS Prostate Cancer Data via High-Resolution RNA-Seq Analysis
Ingenuity Systems, CLC Bio

The goal: To get novel insights into the mechanisms of prostate adenocarcinoma by leveraging next generation sequencing (NGS) data, particularly human transcriptome data, through in silico data analysis and interpretation by Ingenuity’s IPA® software. CLC Genomics Workbench and CLC Genomics Server helped us assess short read RNA-Seq data.
Gene Expression Profiling of Archived FFPE Samples
Miltenyi Biotech

According to the BBMRI (Biobanking and Biomolecular Resources Research Infrastructure) about 8,000,000 formalin-fixed paraffin-embedded (FFPE) samples derived from a multitude of different diseases have been collected in medical centers and biobanks all over Europe during the last decades.
Differential Expression and Localization of Dicer1 and Ovarian Steroid Hormone Receptors in Human Fallopian Tubes
Department of Physiology/Endocrinology, Institute of Neuroscience and Physiology, The Sahlgrenska Academy at University of Gothenburg, Gothenburg, Sweden

Dicer1 expression is upregulated in cell-specific fashion in human Fallopian tubes during ovulation. The stage-dependent expression of Dicer1 and its correlation with ERa, ERß2, and PRB mRNA suggests that tubal Dicer1 helps regulate tubal expression of steroid hormone receptors in a cycle-dependent manner and may contribute to tubal transport in humans.
An improved data processing pipe-line for comprehensive H-NMR and X/MS -omics data
Dept. Analytical Chemistry

In the post acqusition analysis of comprehensive -omics data the pre-processing pipe-line is crucial to extract the maximum possible amount of information from the data. Here we show a processing pipe-line for (1D)H-NMR and (2D)X/MS data comprising; feature detection, inter-sample feature alignment and internal-standard free normalization that outperforms today’s state-of-the-art processing schemes.
Alignment of 1H-NMR data using a Generalized Fuzzy Hough Transform
Stockholm University,Astra Zeneca

In metabolic profiling, multivariate data analysis techniques are used to interpret 1D 1H–NMR data. Multivariate data analysis techniques require that peaks are located in the same variables in every spectrum – this requirement is not met in native NMR spectra. Current state-of-the-art alignment algorithms are unable to align peaks when the spatial order of the peaks changes. We present the Fuzzy Generalized Hough Transform alignment which solves the alignment problem.
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Application Notes
A MIQE Case Study — Effect of RNA Sample Quality and Reference Gene Stability on Gene Expression Data
Bio-Rad Laboratories

In this study, the minichromosome maintenance (MCM) protein, MCM7, was selected as a model target gene to investigate the importance of appropriate reference gene selection and RNA sample quality as described by the MIQE guidelines.
Application of the Amplifluor® SNPs Genotyping System using a FLUOstar OPTIMA Microplate Reader
BMG Labtech

The detection of SNPs (single nucleotide polymorphisms) is an important tool for researchers in order to find mutations in DNA sequences. In this application note we describe a homogeneous fluorescence assay based on PCR. The Amplifluor® SNPs HT Genotyping System from Millipore was used to screen a number of samples with the help of the FLUOstar OPTIMA multidetection microplate reader from BMG LABTECH.
High Yield and Quality with Thermo Scientific Microtiter Deep Well 96 plates in KingFisher Flex Process
Thermo Fisher Scientific

The Thermo Scientific KingFisher Flex magnetic particle processor is specifically designed to automate the time-consuming sample preparation of proteins, nucleic acids and cells in 96-well plate formats.
Isolation and Purification of Genomic DNA and Viral RNA from Clinical Samples with Thermo Scientific KingFisher Flex
Thermo Fisher Scientific

The purification of DNA and RNA from clinical samples requires rapid and reliable processing of large quantities of samples. Automated purification of nucleic acids, proteins and cells with Thermo Scientific KingFisher Flex is a reproducible and high quality method, which produces excellent material for further analyses.
DNA Quantitation in Cuvette and TrayCell using the Thermo Scientific Multiskan GO Spectrophotometer
Thermo Fisher Scientific

This application note describes how to perform photometric DNA quantitation and qualification measurements with the Thermo Scientific Multiskan GO microplate and cuvette spectrophotometer in various cuvette formats.
Rapid and Reproducible DNA Isolation from 1 ml of Whole Blood with Thermo Scientific KingFisher Flex
Thermo Fisher Scientific

This application note shows the benefits of KingFisher Flex by using genomic DNA isolation from blood as an example.
Validated Luminometric DLR™ Reporter Gene Assay with Thermo Scientific Varioskan® Flash
Thermo Fisher Scientific

One of the most common luminometric assays is Dual Luciferase® Reporter Assay from Promega corp. This application note shows how this assay is performed with Varioskan Flash multitechnology microplate reader. The note includes the performance of the normal DLR assay and results from some tests showing important aspects of the basic behaviour and performance of the DLR™ chemistry. This paper describes the overall efficiency of the Varioskan Flash in the measurement of DLR assay.
Simultaneous Detection of Copy Number and Copy-Neutral LOH Using a Single Microarray
Agilent Technologies

Application note describing the Agilent SurePrint G3 CGH+SNP microarray platform for the simultaneous detection of copy number and copy-neutral genetic aberrations.
Novel ProteoPrep® 20 Immunoaffinity Depletion Resin for Human Plasma
Sigma Aldrich

Sigma’s ProteoPrep® 20 Plasma Immunodepletion Kit specifically removes 20 of the most abundant proteins from human plasma or serum in preparation for two-dimensional electrophoresis. The technology specifically removes twenty of the top high abundance proteins utilizing conventional antibodies coupled with small recombinant immunoaffinity ligands. The ProteoPrep 20 technology is advancing the frontier of biomarker discovery.
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