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Gene Quantification Newsletter
August 2015

is sponsored by

     
     

Streamlined and automated NGS workflow


 
  Dear researcher,
dear Gene Quantification page reader,

Our newsletter informs about the latest news in quantitative real-time PCR (qPCR and RT-qPCR), are compiled and summarised on the www.Gene-Quantification.info
The focus of this newsletter 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.

 
Exosome and microRNA transfer Exosome and microRNA transfer -- from paracrine & endocrine to cross-kingdom communication
In multicellular organisms, the cell-to-cell communication is of particular importance for any physiological process, and the proper organization of the entire organism. Numerous studies over the past decade suggest a horizontal transfer of cellular secreted microRNAs between cells, tissues and organs. Hence extracellular RNAs (primarily small non-coding RNAs) represent a novel form of inter-cellular communication by transferring genetic information from a donor cell to a recipient cell. This points to an important new role for small RNAs in inter-cellular communication on the paracrine- and endocrine-level.

Para- and endocrine communication
Small RNAs (primary microRNAs, piRNAs and other small RNA families) can be exported out of the donor cells and transported by various carriers, e.g. membrane-derived vesicles (exosomes, microvesicles, ectosomes, apoptotic bodies, and more), microRNA-binding protein complexes (RBP), or high density lipoproteins (HDL). Secreted microRNAs can be delivered into recipient cells where they function as endogenous microRNAs, simultaneously regulating multiple target genes or signaling pathways.

Cross-kingdom communication
In prokaryotes, this molecular signaling is typically referred to as quorum sensing, whereas in eukaryotic cells, the molecular communication occurs through hormones and cytokines. Recently various publications report that microRNAs can also be transmitted from one species to another, inducing signal interference in distant species, even in a cross-kingdom manner. This new mode of cross-species communication might mediate symbiotic and pathogenic relationships between various organisms.
This can be of enormous importance in the inter-species communication of microorganisms and their hosts or by diet-derived small RNAs. Higher organisms are constantly under attack from pathogens, resulting in severe consequences on global human or veterinary health. Hence small RNA mediated RNA interference (RNAi) is a conserved regulatory mechanism that is involved in almost all eukaryotic cellular processes, including host immunity and pathogen virulence. Recent evidence supports the significant contribution of small RNAs and RNAi to the communication between hosts and some eukaryotic pathogens or symbiotic microorganisms. Mobile silencing signals - most likely small RNAs - are capable of translocating from the host to its interacting organism, and vice versa.
 
 

Para- and endocrine communication between tissue and organs:

  • Unraveling the Mystery of Cancer by Secretory microRNA: Horizontal microRNA Transfer between Living Cells.
  • Human saliva, plasma and breast milk exosomes contain RNA: uptake by macrophages.
  • Endogenous RNAs modulate microRNA sorting to exosomes and transfer to acceptor cells.
  • MicroRNAs transported by exosomes in body fluids as mediators of intercellular communication in cancer.
  • Cross talk of combined gene and cell therapy in ischemic heart disease: role of exosomal microRNA transfer.
  • Transfer of microRNAs by extracellular membrane microvesicles -- a nascent crosstalk model in tumor pathogenesis, especially tumor cell-microenvironment interactions.
  • Regulation of mammalian gene expression by exogenous microRNAs.
  • and more ... microRNA-transfer.Gene-Quantification.info
 
 

Cross-kingdom communication between plants and animals / humans:

  • Conversations between kingdoms: small RNAs.
  • Exogenous plant MIR168a specifically targets mammalian LDLRAP1: evidence of cross-kingdom regulation by microRNA.
  • Assessing the survival of exogenous plant microRNA in mice.
  • Ineffective delivery of diet-derived microRNAs to recipient animal organisms.
  • Effective detection and quantification of dietetically absorbed plant microRNAs in human plasma.
  • Beyond nutrients: food-derived microRNAs provide cross-kingdom regulation.
  • and more ... microRNA-transfer.Gene-Quantification.info
 

 

MIQE & qPCR iBook
How to apply the MIQE guidelines - a visual, interactive and practical qPCR guide
1st edition published in May 2015
Editors:  Afif M. Abdel Nour & Michael W. Pfaffl
ISBN 9783000488061
Free download via iTunes --
https://itunes.apple.com/de/book/miqe-qpcr/id993276375?mt=11

Throughout the past 30 years Polymerase Chain Reaction (PCR) has proven to be the most powerful technique in a scientist toolbox. Only few techniques had a comparable success story like PCR. This MIQE & qPCR iBook will guide you in better practicing in your laboratory thanks to the MIQE guideline. More info here!

Please let us know, if you want to participate with an own application or chapter in the MIQE & qPCR iBook
Contact us via  iBook@bioMCC.com

MIQE & qPCR iBook – a digital publication: How making the MIQE guidelines easier to follow.
Afif M. Abdel Nour & Michael W. Pfaffl
Presentation at qPCR & NGS 2015 Symposium --
http://www.econferences.de/MIQE-qPCR-iBook/

 
 

"Biomolecular Detection and Quantification" -- Call for submissions

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.

Benefits of publishing open access with Elsevier's Biomolecular Detection and Quantification - www.journals.elsevier.com/biomolecular-detection-and-quantification/

  • Peer-reviewed journal indexed by Scopus and supporting ORCID and Crossref to help maintain your publication record.
  • A renowned and respected editorial team with extensive knowledge of your research field. BDQ was established by a group of scientists based on their experience developing and publishing the Minimum Information for Publication of Quantitative Real-Time (and Digital) PCR Experiments (the MIQE and digital MIQE guidelines).
  • Reaching key audiences with 10 million active users per month using our publishing platform ScienceDirect.
  • Choice of user licenses so authors can decide how best to publish open access.
  • A discount on the publication fee for a limited time.

For more information about publishing Open Access with Elsevier, including funding body arrangements, institutional agreements and more, visit: www.elsevier.com/openaccess

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:
real-time PCR data analysis software
 

GenEx 6 available - The most powerful tool for complex qPCR data analysis
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

TATAA Biocenter, Europe´s leading provider of genomic services using quantitative real-time PCR (qPCR), and MultiD Analyses, Europe’s prime software developer for the analysis of multivariate data, release GenEx version 6 for accurate analysis of qPCR data compliant with current Clinical Laboratory Standards Institute (CLSI) guidelines.

The new analyses in GenEx 6 include: Estimating PCR efficiency, testing for outliers, testing linear model, estimating dynamic range, estimating random error, estimating limit of detection, estimating limit of quantification, estimating concentrations of unknowns, evaluation of precision, and verification of precision. For all estimates confidence intervals are calculated.
Additional new features include: Transcript distribution for single cell analysis, Survival Analysis, Receiver Operator Characteristics (ROC), Wizard for ProSeek protein analysis, and reader for 3D Gene microRNA analysis.

View our GenEx webpage and download a FREE GenEx 6 trial version => GenEx.Gene-Quantification.info

Join all GenEx talks by Prof. Mikael Kubista held at recent qPCR & NGS Events => www.eConferences.de/multid/

 

Best regards,

Michael W. Pfaffl
responsible Editor of the Gene Quantification Pages

 

   

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