Dienstag, 8. April 2014

“Stay in touch while on the bench” - how the MIQE applet can increase the quality of your qPCR and dPCR experiments

“Stay in touch while on the bench” - how the MIQE applet can increase the quality of your qPCR and dPCR experiments
Afif M Abdel Nour, Esam Azhar, Michael W Pfaffl and Ghazi Damanhouri
http://www.biomedcentral.com/1471-2164/15/S2/P15

Background

How to check the quality of your qPCR experiments or the reliability of an international publication by an electronic device? From now on iOS based mobile devices, e.g. iPhone, iPad or iPod, will help you to increase the quality of qPCR experiment or publication, by providing a ‘MIQE (The MIQE Guidelines - Minimum Information for publication of Quantitative real-time PCR Experiments) qPCR’ applet [1,2]. Three years ago we created the first interactive solution for scientific guidelines, based on the MIQE qPCR publication [3].

Materials and methods

This first applet was downloaded 7800 times from 89 different countries, and recently Biotechniques journal has selected the APP as one of the leading “methods-oriented applets” and recommended it by the “websites every life scientist should try”.

Results

After this great success we are presenting today the MIQE applet for the digital PCR (Figure 1).
Figure 1. Screenshots from the iOS applet.
The digital PCR MIQE guidelines were published recently by a group of experts [4]. This new application could be used by scientists to check whether their digital PCR (dPCR) experiment or the used literature fulfills the MIQE requirement. The ‘MIQE Guidelines’ checklist provides 83 parameters that dPCR studies should be required or recommended to meet before being considered for publication. This checklist is based on the original published MIQE checklist for the dPCR and we hope it will increase future publication quality and reliability.

Conclusions

There are much more wider seen goals of the ‘MIQE guidelines’, all in all the goals might be summarized as follow: 1) to increase reliability of results, 2) to help insuring the integrity of scientific work, with major focus on biological relevance. This is an easy to use applet that can help reviewers and authors to gain time in there manuscript preparation. Recently by using this applet we managed to analyze and evaluate 461 scientific papers published by Arabian countries (paper accepted in PLOSOne).

References

  1. Dooms M, Chango A, Barbour E, Pouillart P, Abdel Nour AM: Improving biological relevancy of transcriptional biomarkers experiments by applying the MIQE guidelines to pre-clinical and clinical trials.
    Methods 2013, 59(1):147-153. PubMed Abstract | Publisher Full Text OpenURL
  2. Abdel Nour A, Pfaffl M, Kurts R: MIQE qPCR app (Version 1.5.1) [Mobile application software].
    2011.
  3. Bustin SA, Benes V, Garson JA, Hellemans J, Huggett J, Kubista M, Mueller R, Nolan T, Pfaffl MW, Shipley GL, et al.: The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments.
    Clinical chemistry 2009, 55(4):611-622. PubMed Abstract | Publisher Full Text OpenURL
  4. Huggett JF, Foy CA, Benes V, Emslie K, Garson JA, Haynes R, Hellemans J, Kubista M, Mueller RD, Nolan T, et al.: The digital MIQE guidelines: Minimum Information for Publication of Quantitative Digital PCR Experiments.
    Clinical chemistry 2013, 59(6):892-902. PubMed Abstract | Publisher Full Text OpenURL

Donnerstag, 3. April 2014

Very Hot - Solar PCR !

Very Hot - Solar PCR !
Smartphones can forecast the weather, direct you to your next meeting, or entertain you during a long flight. But can they diagnose cancer?
Erickson’s team enabled PCR in the absence of reliable electricity by harnessing another resource that almost everybody has access to: the sun. The system they devised uses a movable lens and photomask to alternatively heat and cool the channels of a microfluidic device via solar power. The user simply points the assembly at the sun, raises or lowers the mask and chip to adjust for differences in light intensity and ambient temperature, and starts the reaction. As a sample travels from the center of the disk-shaped circuit to its periphery and back again, it passes through different temperature zones, creating the conditions for PCR.
Find out ...
http://www.biotechniques.com/news/biotechniquesNews/biotechniques-351006.html


Mittwoch, 26. März 2014

qPCR News - March 2014 - brand new GenEx 6 version for download


Dear researcher,
Our newsletter informs about the latest news in quantitative real-time PCR (qPCR and RT-qPCR), which are compiled and summarised on the Gene Quantification domain. The focus of this newsletter issue is:

If this newsletter is not displayed correctly by your email client, please use following http://qPCRnews.Gene-Quantification.info

Freitag, 14. März 2014

GenEx version 6 released!

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 3DGene microRNA analysis.

“We have been using GenEx for many years at Technical University of Munich. With every new released version we are impressed by the many clever functionalities introduced for RT-qPCR analysis, especially the data normalisation and visualisation tools like PCA or HCA”, says Michael W. Pfaffl. “The new CLSI compliant analyses are most interesting to us and a natural extension of the MIQE guidelines”.




Attached is the full press release, pleasecontact me if you have any questions!

Donnerstag, 13. März 2014

Scientific Integrity: Can Molecular Medicine Be Trusted

Scientific Integrity: Can Molecular Medicine Be Trusted
September 2012 by Stephen Bustin
The aim of presentaton is to allow the audience who are not likely to be expert in the PCR field, to come away with a clear understanding why there is absolutely no chance of any of the scientific data being correct.
A 1998 Lancet publication reported on the case histories of 12 previously normal children who developed symptoms of autism or inflammatory bowel disease after having had received the measles, mumps, and rubella (MMR) vaccine. This paper formed the basis for claims of a new type of gastrointestinal disease, termed autistic enterocolitis and sparked a major health scare in the UK and the USA.The lecture will review the complete absence of credibility associated with the molecular evidence underlying a supposed link between the MMR vaccination and autism in children.