qPCR NEWS June 2008 - Update in RNA integrity




Dear researcher,
dear Gene Quantification page reader,

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

- RNA integrity page updated!
- CAmpER - Real-time PCR analysis software
- Event calendar 2008
- qPCR meetings 2008
- qPCR application workshops

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

RNA Quality control The assessment of RNA integrity is a critical �rst
step in obtaining meaningful gene expression data. Working with low-
quality RNA may strongly compromise the experimental results of
downstream applications which are often labour-intensive, time-
consuming, and highly expensive. Using intact and integer RNA is a key
element for the successful application of modern molecular biological
methods, like qRT-PCR or micro-array analysis. To verify RNA quality
nowadays commercially available automated capillary-electrophoresis
systems are available which are on the way to become the standard in
RNA quality assessment. Pro�les generated yield information on RNA
concentration, allow a visual inspection of RNA integrity, and
generate approximated ratios between the mass of ribosomal sub-units.

More info he http://RNA-integrity.gene-quantification.info/


--------------------------------------------------------------------------------

Updated publications - RNA Quality control

Impact of RNA quality on reference gene expression stability.
Claudina Angela Pérez-Novo, Cindy Claeys, Frank Speleman, Paul Van
Cauwenberge, Claus Bachert, and Jo Vandesompele
BioTechniques 2005 Volume 39, Number 1: pp 52-56

Improved RNA quality and TaqMan® Pre-amplification method (PreAmp) to
enhance expression analysis from formalin fixed paraffin embedded
(FFPE) materials.
Li J, Smyth P, Cahill S, Denning K, Flavin R, Aherne S, Pirotta M,
Guenther SM, O'Leary JJ, Sheils O.
BMC Biotechnol. 2008 8:10.

Optimization of the PAXgene blood RNA extraction system for gene
expression analysis of clinical samples.
Chai V, Vassilakos A, Lee Y, Wright JA, Young AH.
J Clin Lab Anal. 2005;19(5): 182-188.

Successful downstream application of the Paxgene Blood RNA system from
small blood samples in paediatric patients for quantitative PCR
analysis.
Carrol ED, Salway F, Pepper SD, Saunders E, Mankhambo LA, Ollier WE,
Hart CA, Day P.
BMC Immunol. 2007 8:20.

Impact of RNA degradation on gene expression profiles: assessment of
different methods to reliably determine RNA quality.
Copois V, Bibeau F, Bascoul-Mollevi C, Salvetat N, Chalbos P, Bareil
C, Candeil L, Fraslon C, Conseiller E, Granci V, Mazière P, Kramar A,
Ychou M, Pau B, Martineau P, Molina F, Del Rio M.
J Biotechnol. 2007 127(4): 549-559.

REVIEW: RNA integrity and the effect on the real-time qRT-PCR
performance.
Simone Fleige & Michael W. Pfaffl
Molecular Aspects of Medicine 27 (2006) 126–139

Successful RNA extraction from various human postmortem tissues.
Heinrich M, Matt K, Lutz-Bonengel S, Schmidt U.
Int J Legal Med. 2007 121(2): 136-142.

RNA quality in frozen breast cancer samples and the influence on gene
expression analysis – a comparison of three evaluation methods using
microcapillary electrophoresis traces.
Strand C, Enell J, Hedenfalk I, Fernö M.
BMC Mol Biol. 2007 8: 38.

Preanalytical mRNA stabilization of whole bone marrow samples.
Langebrake C, Günther K, Lauber J, Reinhardt D.
Clin Chem. 2007 53(4): 587-593.


--------------------------------------------------------------------------------

With the new qPCR INFO PORTAL and all the presented tools we will help
you with to find the right information about qPCR and related topics
in Molecular Biology in the literature and in the World Wide Web.
= Papers / Protocols / Methods / Databases / Alets / Feeds / Books /
Forums / E-mail / Directory

http://infoportal.gene-quantification.info/


--------------------------------------------------------------------------------

CAmpER - Real-time PCR analysis software

CAmpER - Calculation of Amplification Efficiencies for RT-PCR
experiments is a tool for the automatic analysis of real time PCR
experiments.

http://www.gene-quantification.de/download.html#camper

Automatic analysis, annotation and storage of real-time PCR
experiments performed with different real-time PCR systems, currently
the LightCycler® and the Opticon®.


--------------------------------------------------------------------------------

Upcoming Events World-wide academic and commercial qPCR Events
http://events.gene-quantification.info/

Symposia, Meetings, Conferences, Workshops, Seminars, Online-Seminars,
qPCR Education Program, ...etc..
Please submit your qPCR event here = events@gene-
quantification.info


--------------------------------------------------------------------------------

qPCR SYMPOSIUM BENELUX

The prominent and still growing place taken by real-time quantitative
PCR in applied and fundamental research and clinical diagnostics
almost appears obvious. However, it is clear that contributions made
by various scientists and companies in the field during the last
decade rendered this technology useful and affordable for many users.

More info = http://www.gene-quantification.de/meetings.html#benelux

Importantly, the qPCR domain is still in constant evolution, making it
sometimes hard to stay informed about new methodological approaches or
original studies using the real-time PCR. Therefore, we have scheduled
a one day "Benelux qPCR Symposium" on October 6th 2008, giving the
opportunity to the scientific community to get informed and discuss
various aspects of real-time PCR (including but not limited to new
applications, assay optimization and validation, new technologies,
etc.). Scientific talks, posters sessions and industrial booths will
be at the menu.

Download poster = http://www.gene-quantification.de/qp...ux_poster..pdf


--------------------------------------------------------------------------------

qPCR Symposium USA
10. - 13. November 2008
Clarion Hotel San Francisco Airport, Millbrae, CA , USA

More info = http://www.gene-quantification.de/me....html#qpcr_usa

- High throughput platforms: High throughput applications, real-time
RT-PCR arrays, digital PCR
- Forthcoming technologies: Immuno PCR, Methylation sensitive PCR,
SNP analysis, High resolution melt, microRNA detection, - Multiplex
technologies
- Single-cell qPCR: Pre-amplification techniques, sub-cellular PCR,
Expression heterogeneity, laser microdissection, FACS sorting,
Enrichment of rare cells
- Multimarker diagnostics: Disease markers, Tissue specific markers,
Cancer markers, Stem cells, Differentiation markers, Cancer stem cells
- Real-time PCR Expression Profiling: multivariate and multiway
expression profiling, temporal expression profiling, spatiotemporal
maps
- Pre-analytical Steps: Sampling technologies, Extraction methods,
Reverse Transcription, Quality Control, Standards, Standard Operating
Procedures, Interlaboratory Exercises
- Normalization & Standardization: Normalization strategies,
Reference genes, Spikes, Standard curves, multiplexing, inter-run
calibrators, quantification strategies, mRNA degradation
- Data management and data treatment: software applications, data
mining, data visualization, biostatistics, multivariate statistics



--------------------------------------------------------------------------------

qPCR WORKSHOP

TATAA Biocenter Germany - qPCR Application workshops

At the TATAA Biocenter Germany we offer qPCR application workshops,
the 3-day Core Module and a 2-day Biostatistics Module. qPCR courses
are held in regularly in Göteborg, Sweden, in English and in Freising-
Weihenstephan, Germany, in German and English, and in Prague, Czech
Republic in English and Czech.
Depending on the occasion the workshop language and the different
prices may apply. Further customized workshops and specialized
trainings will be held as well across Europe and world-wide. TATAA
Biocenter Germany courses are held in cooperation with the Institute
of Physiology, located at the Technical University of Munich, in
Freising-Weihenstephan, near Munich, very close to the Munich Airport
(MUC). For more information and to register for the qPCR application
workshops, please see our web page: http://tataa.gene-quantification.info/

Course Occasions 2008:
3-day qPCR Core Module (Mon. - Wed.) and 2-day BioStatistics
Module (Thu. - Fri.)

* 7 - 11th July 2008 (in Freising, Germany, English language)
* 15 - 19th September 2008 (in Freising, Germany, English language)
* 13 - 17 October 2008 (in Freising, Germany, Kurs wird in DEUTSCH
gehalten, German language)
* 24 - 28th November 2008 (in Freising, Germany, English language)

Please register here = http://www.tataa.com/Courses/Courses.html

--------------------------------------------------------------------------------

Forward Please send the qPCR NEWS to further scientists and friends
who are interested in qPCR !


Best regards,

Michael W. Pfaffl
responsible Editor of the Gene Quantification Pages
http://www.gene-quantification.info


--------------------------------------------------------------------------------

If this newsletter is not displayed correctly by your email client,
please use following link:
http://qpcrnews.gene-quantification.info/

The qPCR NEWS and the Gene Quantification Pages are educational sites
with the only purpose of facilitating access to qPCR related
information on the internet. The qPCR NEWS and the Gene
Quantification Pages are edited by Michael W. Pfaffl and powered by
BioScience Events. Copyright © 2005 - 2008 All rights reserved. Any
unauthorized use, reproduction, or transfer of this message or its
contents, in any medium, is strictly prohibited. Disclaimer &
Copyrights are displayed on the homepage www.gene-quantification.com
To subscribe or change your e-mail address in qPCR NEWS, and if you
would like to receive future issues FREE of charge, please send an e-
mail with the subject SUBSCRIBE to mailto:newsletter@gene-
quantification.info?subject=SUBSCRIBE