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Gene Quantification Newsletter
June  2016

is sponsored by


Streamlined and automated NGS workflow 

  Dear researcher,
dear Gene Quantification page reader,

Our newsletter informs about the latest news in gene expression profiling using qPCR and related methods, which are compiled and summarised on www.Gene-Quantification.info
The focus of this qPCR NEWS issue is:


Streaming portal

Join the updated
eConferences streaming webportal
www.eConferences.de -- Amplify your knowledge in  qPCR, dPCR and NGS!
This streaming portal is dedicated to scientists from the community of qPCR, digital PCR, Next Generation Sequencing (NGS), MicroGenomics (MG) and Molecular Diagnostics (MDx). You’ll find here all the records of 280 presentations held at qPCR & NGS and MG Events in the past years – qPCR 2010 in Vienna  to qPCR & NGS 2015 in Freising-Weihenstephan.
We provide the presentations via movie streaming technology in high quality – high resolution and perfect sound quality in high speed – on any internet browser or mobile device.

 Liquid Biopsy

Liquid Biopsy

Liquid biopsy is a minimally invasive technology for detection of molecular biomarkers without the need for costly or invasive procedures. It is a simple and non-invasive alternative to surgical biopsies which enables medical doctors to discover a range of information about a disease or a tumour through a simple blood sample. Circulating cancer cells or traces of the cancer’s RNA or DNA in the blood can give clues about which treatments are most likely to work for that patient. Circulating nucleic acids are protected by extracellular micro-vesicles, mainly exosomes.
New dedicated methods enable you to enrich and purify from this liquid biopsy:

  • circulating free DNA (cfDNA)
  • circulating small-RNA
  • circulating tumor cells (CTCs)
  • extracellular mirco-vesicles (including exosomes) containing small-RNA, mRNA and DNA

What can we learn from liquid  biopsies?
by Marc Beishon, CancerWorld
Early detection, disease prognosis, a guide to treatment, a key to unlock the secrets of how cancers evolve. Researchers have high hopes for what they can learn from the biological detritus shed by primary tumours and metastases.

... ... more info Liquid-Biopsy.Gene-Quantification.info

 Liquid Biopsy

Circulating Nucleic Acids in Plasma and Serum -- An Overview
Annals of the New York Academy of Sciences 2001

Real-time liquid biopsy -- circulating tumor cells versus circulating tumor DNA
Alix-Panabières C and Pantel K
Ann Transl Med. 2013 1(2): 18
Liquid biopsy is a new diagnostic concept, i.e., analysis of therapeutic targets and drug resistance-conferring gene mutations on circulating tumor cells and cell-free circulating tumor DNA released into the peripheral blood from metastatic deposits. Here, we discuss current challenges and future perspectives of the liquid biopsy concept in clinical oncology. We postulate that this concept will contribute to a better understanding and clinical management of drug resistance in cancer patients.

Liquid biopsy -- monitoring cancer-genetics in the blood
Emily Crowley, Federica Di Nicolantonio, Fotios Loupakis & Alberto Bardelli
Nature Reviews Clinical Oncology 10, 472-484

The potential of liquid biopsies
Buder A, Tomuta C, Filipits M
Curr Opin Oncol. 2016 Mar;28(2): 130-134
PURPOSE OF REVIEW:  This article discusses the current status and applications of liquid biopsy in nonsmall cell lung cancer (NSCLC).

Toward reliable biomarker signatures in the age of liquid biopsies - how to standardize the small RNA-Seq workflow
Dominik Buschmann, Anna Haberberger, Benedikt Kirchner, Melanie Spornraft, Irmgard Riedmaier, Gustav Schelling, Michael W. Pfaffl
Nucleic Acids Research, 2016 Jun 17. gkw545

Changing the paradigm -- circulating tumor DNA as a ‘liquid biopsy’ for clinical biomarker assessments
Timothy R Wilson & Mark R Lackner
Clin. Invest. (Lond.)  (2014) 4(12), 1083–1093

Circulating microRNA Biomarkers as 'Liquid Biopsy' for Cancer Patients: Pros and Cons of Current Assays
Ono S, Lam S, Nagahara M, Hoon DS
J Clin Med. 2015 4(10): 1890-1907

... ... more papers Liquid-Biopsy.Gene-Quantification.info


Join our next Gene Quantification Event in April 2017

qPCR dPCR & NGS 2017

qPCR dPCR & NGS 2017
8th international Gene Quantification Event
Symposium & Industrial Exhibition & Application Workshops

Main topics:   Liquid Biopsy, Integrative Big Data Analysis, Biomarker Signature … and beyond
3 - 7 April 2017, in Freising-Weihenstephan,
School of Life Sciences, Technical University of Munich, Weihenstephan, Germany

Download Event Announcement Announcement.qPCR-dPCR-NGS-2017.net

Scientific Symposium Sessions:

  • Liquid Biopsy & Circulating Nucleic Acids
  • Advanced Molecular Diagnostics
  • Integrative Big Data Analysis
  • Biomarker Signatures
  • Digital PCR
  • Non-coding RNAs -- microRNA, isomiRs, small RNAs, long non-coding RNAs
  • MicroGenomics & Single-Cells Diagnostics
  • Next Generation Sequencing (NGS)
  • Molecular Diagnostics in Life Science
  • MIQE & QM & Standardisation Strategies in Molecular Diagnostics

Register and submit your scientific contribution (talk or poster abstracts) => Registration.qPCR-dPCR-NGS-2017.net


Publish in Biomolecular Detection and Quantification
The new online, open access, peer-reviewed journal in molecular methodology applications

Biomolecular Detection and Quantification (BDQ) is an open access, peer-reviewed international journal dedicated to championing excellence in molecular study design, measurement, data analysis and reporting. Its focus is on the application of qualitative and quantitative molecular methodologies to all areas of clinical and life sciences. Download the recent BDQ papers on Elsevier Science  Direct.

   BDQ is now listed in PubMed Central (PMC) -- all published papers are free for download!

The journal has two main aims:

  • to provide a forum for discussion and recommendation of guidelines designed to improve the accuracy of molecular measurement, its data analysis and the transparency of its subsequent reporting;
  • to publish molecular biology based studies that adhere to best practice guidelines, both current and future.

We look forward to receiving your paper!

Kind regards,

The Editors
Stephen Bustin, Jim Huggett, Justin O'Grady, Michael W. Pfaffl, Carl Wittwer, Ron Cook

View full editorial board


GenEx 6.1

The most powerful tool for complex qPCR data analysis

Compliant with MIQE and CLSI guidelines

GenEx offers advanced methods to analyze real-time qPCR data with simple mouse clicks

Download a FREE GenEx 6.1 trial version => GenEx.Gene-Quantification.info
GenEx is a popular software for qPCR data processing and analysis. Built in a modular fashion GenEx provides a multitude of functionalities for the qPCR community, ranging from basic data editing and management to advanced cutting-edge data analysis. GenEx 6.1 – the software compliant with MIQE and CLSI guidelines

Basic data editing and management
Arguably the most important part of qPCR experiments is to pre-process the raw data into shape for subsequent statistical analyses. The pre-processing steps need to be performed consistently in correct order and with confidence. GenEx Standard’s streamlined and user-friendly interface ensures mistake-free data handling. Intuitive and powerful presentation tools allow professional illustrations of even the most complex experimental designs.

Advanced cutting-edge data analysis
When you need more advanced analyses GenEx Enterprise is the product for you. Powerful enough to demonstrate feasibility it often proves sufficient for most users demands. Current features include parametric and non-parametric statistical tests, Hierarchical Cluster Analysis (HCA), Heatmap, Principal Component Analysis (PCA, and Artificial Neural Networks. New features are continuously added to GenEx with close attention to customers’ needs.

New features
Sample handling and samples individual biology often contribute to confounding experimental variability. By using the new nested ANOVA feature in GenEx version 5 user will be able to evaluate variance contributions from each step in the experimental procedure. With a good knowledge of the variance contributions, an appropriate distribution of experimental replicates can be selected to minimize confounding variance and maximize the power of the experimental design! For experiments with complex features, such as for example multifactorial diseases, analytical relationships and classifications may not readily be available. The support vector machine feature in the new version of GenEx is so easy to use that it will make this advanced supervised classification method easily available to novice users, while providing access to advanced parameters for experts.

Download a free GenEx 6.1 trail version => http://GenEx.gene-quantification.info


Best regards,

Michael W. Pfaffl
responsible Editor of the Gene Quantification Pages



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