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Gene Quantification Newsletter
January 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.

 
 

Advanced Molecular Diagnostics for Biomarker Discovery
Special Issue -- Advanced Molecular  Diagnostics for Biomarker Discovery
Edited by Michael W. Pfaffl
Part 1 -- BDQ, Volume 5, Pages 1-38 (September 2015)
and
Part 2 -- BDQ, Volume 6, Pages 1-32 (January 2016)

I have the honour to present the first special issue in ‘Biomolecular Detection and Quantification’ (BDQ) which is entitled ‘Advanced Molecular Diagnostics for Biomarker Discovery’. It is published in conjunction with the last qPCR and NGS 2015 event which took place in March 2015 in Freising Weihenstephan, Germany (www.qPCR-NGS-2015.net) covering the same theme. This aim of this special issue is to present the newest developments in highly sophisticated molecular techniques and related scientific applications in combination with the latest data analysis tools. Furthermore, the implementation of these advanced molecular diagnostics tools for discovery, quantification and validation of molecular biomarkers will be presented. Since 2004 the history of this conference series was primarily focused on quantitative PCR (qPCR) related techniques and applications, but since 2010 the focus was broadened to digital PCR (dPCR), next generation sequencing (NGS) and the underlying complex data analysis applying bioinformatical tools. This history is nicely summarized by the BDQ editors in one of the previous editorials ‘qPCR, dPCR, NGS – A journey’.

Today, biomarkers have immense scientific and potential clinical value in the diagnostic testing pipeline. They span the broad diagnostic sector from the genome to the phenome over various ‘-ome’ levels and have been used since the earliest days of the application of molecular biology. A biomarker signature is capable of revealing specific biological traits or measurable physiological changes, according to a disease status, physiological or pathological condition, or after drug application. As novel gene-based diagnostics proliferate, they will be increasingly important to drug development, approval and later in clinical practice. There are numerous promising singular biomarkers or more complex multiple biomarker signatures available, the most important of which are currently used for assessing drug development, patient stratification or measuring the efficacy of treatment in therapeutic medicine. Clearly there is a translation problem to transfer the results from molecular diagnostics research to drug development and finally clinical practice. In future, biomarkers and their interaction on various ‘-ome’ levels will increase the molecular and cellular knowledge of disease and drug mechanisms. ... ... ...

 

Special Issue:   Advanced Molecular Diagnostics for Biomarker Discovery – Part I
Volume 5, Pages 1-38 (September 2015) -- Part 1

Guest editor's introduction for BDQ special issue: ‘Advanced Molecular Diagnostics for Biomarker Discovery’
Pages 1-2;  Michael W. Pfaffl

Effects of post-mortem and physical degradation on RNA integrity and quality.
Pages 3-9;  Monika Sidova, Silvie Tomankova, Pavel Abaffy, Mikael Kubista, Radek Sindelka

Removal of between-run variation in a multi-plate qPCR experiment.
Pages 10-14;  Jan M. Ruijter, Adrián Ruiz Villalba, Jan Hellemans, Andreas Untergasser, Maurice J.B. van den Hoff

The potential of circulating extracellular small RNAs (smexRNA) in veterinary diagnostics—Identifying biomarker signatures by multivariate data analysis.
Pages 15-22;  Spornraft Melanie, Kirchner Benedikt, Michael W. Pfaffl, Riedmaier Irmgard

Feasibility of a workflow for the molecular characterization of single cells by next generation sequencing.
Pages 23-29;  Francesca Salvianti, Giada Rotunno, Francesca Galardi, Francesca De Luca, Marta Pestrin, Alessandro Maria Vannucchi, Angelo Di Leo, Mario Pazzagli, Pamela Pinzani

Control for stochastic sampling variation and qualitative sequencing error in next generation sequencing.
Pages 30-37;  Thomas Blomquist, Erin L. Crawford, Jiyoun Yeo, Xiaolu Zhang, James C. Willey


Special Issue:   Advanced Molecular Diagnostics for Biomarker Discovery – Part II
Volume 6, Pages 1-32 (January 2016) -- Part 2

Pitfalls in PCR troubleshooting: Expect the unexpected?
Pages 1-3;  Livia Schrick, Andreas Nitsche

Differential amplicons (ΔAmp)—a new molecular method to assess RNA integrity.
Pages 4-12;  J. Björkman, D. Švec, E. Lott, M. Kubista, R. Sjöback

Evaluation of bias associated with high-multiplex, target-specific pre-amplification.
Pages 13-21;  Steven T. Okino, Michelle Kong, Haya Sarras, Yan Wang

Targeted resequencing and variant validation using pxlence PCR assays.
Pages 22-26;  Frauke Coppieters, Kimberly Verniers, Kim De Leeneer, Jo Vandesompele, Steve Lefever

Incidence and detection of beak and feather disease virus in psittacine birds in the UAE.
Pages 27-32;  F. Hakimuddin, F. Abidi, O. Jafer, C. Li, U. Wernery, Ch. Hebel, K. Khazanehdari

 







qPCR & NGS  Event Calendar 2016


















qPCR & NGS  Event Calendar  2016

Microgenomics 2016
The 2nd edition of this unique event will be held once again in Paris, France

2-3 June 2016;  Symposium Venue -- French National Library (La Bibliothèque National de France François Mitterand)

Aims and Topics:  Today, one of the biggest challenges for biologists is the ability to understand and analyze the genome expressed in a given cell type in the tissue environment, which means you can specifically isolate these cells and work on very small quantities of biological material. The aim of the congress is to bring together internationally renowned experts in the field and offer an overview of the present knowledge for obtaining high quality molecules and future developments in "omic" tools (DNA, RNA and protein) for genome analysis and its expression at the cell level. The latest advances in technology in the field will be introduced (flow cytometry, laser capture microdissection, NGS, digital PCR, WGA, LC-MS/MS, RPLA, etc).

The symposium will be divided into four sessions introduced by keynote lecturers, experts in their field :

  1- Sampling methods (flow cytometry, laser capture microdissection, DEP array)
  2- Microgrenomics and DNA
  3- Microgenomics and RNA and small RNA
  4- Microgrenomics and Proteins


Genomic Applications of qPCR, dPCR & NGS

The comprehensive meeting will focus on new developments in qPCR technology, concentrating on improvements to qPCR design, the acquisition of accurate data, and efficient data analysis. Particular emphasis will also be given to the use of qPCR in Cancer diagnosis and the use of dPCR in the clinic, covering applications such as infectious disease diagnostics and cancer detection.
We will examine the latest developments in sequencing platforms and methods. Focus will be given to RNA sequencing, as well as emerging clinical applications of NGS. Presentations will also highlight the use of bioinformatics and data analysis. In addition to the extensive conference programme, we will also be holding a pre-conference Training Workshop in conjunction with TATAA Biocenter, Sweden.

Attending this meeting will provide you with an excellent opportunity for networking with the world’s leading experts, helping you to find unique solutions and build long term collaborations.


Exosomes and Liquid Biopsies Asia 2016

Welcome to Exosomes and Liquid Biopsies Asia 2016.  This conference is being held in one of the hubs of trade and commerce in Asia -- Taipei, Taiwan.  Just a short flight from most business destinations in Asia and a nonstop flight from the United States and Europe, Taipei is an excellent meeting place and venue to bring together academics and industry participants from Asia, Europe and the United States to focus on an exciting area of research: Liquid (biofluid) biopsy development driven by circulating biomarkers such as circulating nucleic acids, circulating extracellular vesicles (such as exosomes) and circulating tumor cells (CTCs).

This conference brings together key opinion leaders, established researchers as well as junior investigators for oral presentations, poster presentations as well as an exhibition to bring to the researchers the most up-to-date technologies and products from companies to accelerate their research.

Academics from across Asia, Europe and the United States as well as Industry Participants from companies large and small would find this two-day conference extremely valuable as a learning and networking experience.

Agenda Topics

    * Circulating Biomarker Classes: Exosomes, Microvesicles, Circulating-Free DNA (cfDNA), Circulating RNA, Circulating Tumor Cells (CTCs)
    * Circulating Protein Biomarkers for Liquid Biopsy Development
    * Emerging Company Showcase: Companies Highlight Products and Services in Liquid Biopsy Space
    * Exosome Capture using Microfluidics Approaches
    * Extracellular Vesicles (Exosomes, Microvesicles, Microparticles) in Various Disease Classes (Cancer, Cardiovascular Diseases, CNS Diseases)
    * Liquid Biopsies/Biofluid Biopsies for Cancer and Other Disease Classes
    * Next-Generation Sequencing (NGS), Digital PCR and qPCR: Technologies for Liquid Biopsy Development
    * Various Subclasses of Extracellular Vesicles (EVs) and their Biomarker Cargo: Exosomes, Microvesicles, Oncosomes


21st World Congress on Advances in Oncology  &  19th International Symposium on Molecular Medicine
October 6-8, 2016;   Metropolitan Hotel ***** Athens, Greece

The continued interest and increasing support that our annual Congress on Advances in Oncology and Symposium of Molecular Medicine has gained over the years, motivates us to repeat this success this year in October 2016. Over the last 20 years we have consistently welcomed a broad international audience, which surpassed 500 participants in 2015.
The aim of our conferences is to keep participants up to date with the latest scientific developments in Oncology and Molecular Medicine. Our conferences constitute a unique venue for basic and clinical research for the development of molecular diagnostics and cancer therapeutics.
In parallel to the scientific symposium of 2016, an Industrial Exhibition will take place, at which international companies, leaders in the fields of Oncology and Molecular Medicine, will present their latest technologies and services in clinical diagnostics. If you are interested in joining the exhibition, please contact us at  exhibition@spandidos-publications.com

 
 

"Biomolecular Detection and Quantification" -- Call  for Papers
The new online, open access, peer-reviewed journal in molecular methodology applications.

Recent Advances in  MicroGenomics - Molecular Analysis at the Tissue-specific and Single Cell  Level
Second International Symposium on MicroGenomics 2016
Guest Editors:  Claudia Bevilacqua & Michael W. Pfaffl

Digital PCR (dPCR) -  Special Issue
This special issue of Biomolecular Detection and Quantification focusses on dPCR.T
Editors: Stephen Bustin, Jim Huggett, Justin O'Grady

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.

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 available:
The most powerful tool for complex qPCR data analysis 

Download a FREE GenEx 6 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. Download GenEx User Guide

 

Best regards,

Michael W. Pfaffl
responsible Editor of the Gene Quantification Pages

 

   

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