[forensic-science] qPCR NEWS September 2012 - focus on CNA (circulating nucleic acids)


qPCR NEWS September 2012 - focus on CNA (circulating nucleic acids)

Dear researcher,
dear Gene Quantification page reader,

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 homepage. The focus of this newsletter issue is:

* UPDATE of various new papers - CNA (circulating nucleic acids) - http://CNA.gene-quantification.info
* Second announcement qPCR & NGS Symposium in March 2013 - http://www.qPCR-NGS-2013.net
* GenEx - a powerful tool for qPCR data analysis - download a free trial version - http://GenEx.gene-quantification.info

If this newsletter is not displayed correctly by your email client, please use following

UPDATE of various new papers - CNA (circulating nucleic acids) - http://cna.gene-quantification.info

Most of the DNA and RNA in the body is located within cells, but a small amount of nucleic acids can also be found circulating freely in the blood. These DNA, RNA and small RNA molecules are thought to come from dying cells that release their contents into the blood as they break down. The term "Circulating Nucleic Acids =CNA" refers to segments of DNA or RNA found in the bloodstream.
CNAs offers a non-invasive approach to a wide range in diagnostics of clinical disorders that will allow the basic information necessary not only for use in predictive medicine but also for direct use in acute medicine. Further free CNAs offer unique opportunities for early diagnosis of clinical conditions, e.g. in early cancer detection via microRNAs.


Circulating Nucleic Acids - new papers

Genomic analysis of fetal nucleic acids in maternal blood
Dennis Lo YM, Kwun Chiu RW.
Annu Rev Genomics Hum Genet. 2012 Sep 22;13: 285-306

Nucleic acids in circulation: are they harmful to the host?
Mittra I, Nair NK, Mishra PK.
J Biosci. 2012 Jun;37(2): 301-312

Non-invasive prenatal diagnosis of single-gene disorders from maternal blood
Bustamante-Aragonés A, Rodríguez de Alba M, Perlado S, Trujillo-Tiebas MJ, Arranz JP, Díaz-Recasens J, Troyano-Luque J, Ramos C.
Gene. 2012 Aug 1;504(1): 144-149

Circulating micro-RNAs as potential blood-based markers for early stage breast cancer detection
Schrauder MG, Strick R, Schulz-Wendtland R, Strissel PL, Kahmann L, Loehberg CR, Lux MP, Jud SM, Hartmann A, Hein A, Bayer CM, Bani MR, Richter S, Adamietz BR, Wenkel E, Rauh C, Beckmann MW, Fasching PA.
PLoS One. 2012;7(1): e29770

Evaluation of circulating tumor cells and circulating tumor DNA in non-small cell lung cancer: association with clinical endpoints in a phase II clinical trial of pertuzumab and erlotinib
Punnoose EA, Atwal S, Liu W, Raja R, Fine BM, Hughes BG, Hicks RJ, Hampton GM, Amler LC, Pirzkall A, Lackner MR.
Clin Cancer Res. 2012 Apr 15;18(8): 2391-2401

De novo sequencing of circulating miRNAs identifies novel markers predicting clinical outcome of locally advanced breast cancer
Wu X, Somlo G, Yu Y, Palomares MR, Li AX, Zhou W, Chow A, Yen Y, Rossi JJ, Gao H, Wang J, Yuan YC, Frankel P, Li S, Ashing-Giwa KT, Sun G, Wang Y, Smith R, Robinson K, Ren X, Wang SE.
J Transl Med. 2012 10:42.

Genome-wide maps of circulating miRNA biomarkers for ulcerative colitis
Duttagupta R, DiRienzo S, Jiang R, Bowers J, Gollub J, Kao J, Kearney K, Rudolph D, Dawany NB, Showe MK, Stamato T, Getts RC, Jones KW.
PLoS One. 2012;7(2): e31241

Circulating microRNAs in plasma of patients with gastric cancers
Tsujiura M, Ichikawa D, Komatsu S, Shiozaki A, Takeshita H, Kosuga T, Konishi H, Morimura R, Deguchi K, Fujiwara H, Okamoto K, Otsuji E.
Br J Cancer. 2010 Mar 30;102(7): 1174-1179

Exosomes: Fit to deliver small RNA
Zomer A, Vendrig T, Hopmans ES, van Eijndhoven M, Middeldorp JM, Pegtel DM.
Department of Pathology; Cancer Center Amsterdam; VU University Medical Center; Amsterdam, The Netherlands.
Commun Integr Biol. 2010 Sep;3(5): 447-450

The majority of microRNAs detectable in serum and saliva is concentrated in exosomes
Gallo A, Tandon M, Alevizos I, Illei GG.
PLoS One. 2012;7(3):e30679

Mechanism of transfer of functional microRNAs between mouse dendritic cells via exosomes
Montecalvo A, Larregina AT, Shufesky WJ, Stolz DB, Sullivan ML, Karlsson JM, Baty CJ, Gibson GA, Erdos G, Wang Z, Milosevic J, Tkacheva OA, Divito SJ, Jordan R, Lyons-Weiler J, Watkins SC, Morelli AE.
Blood. 2012 Jan 19;119(3): 756-766

Functional transfer of microRNA by exosomes
Stoorvogel W.
Blood. 2012 Jan 19;119(3): 646-648
Comment on -- Mechanism of transfer of functional microRNAs between mouse dendritic cells via exosomes [Blood. 2012]

Secretory microRNAs as a versatile communication tool
Iguchi H, Kosaka N, Ochiya T.
Commun Integr Biol. 2010 Sep;3(5): 478-481


Second announcement qPCR & NGS Symposium in Freising-Weihenstephan
18-22 March 2013
Download the latest Event Flyer => http://tinyurl.com/qPCR-NGS-2013

On behalf of the Organisation Committee and the Scientific Board it is a great pleasure to invite you to the 6th International qPCR & NGS 2013 Event. The event is divided in a 3-day scientific Symposium with an Industrial Exhibition and various 2-day Application Workshop to be held at the Center of Life Science in Freising Weihenstephan, Technische Universität München (Germany). The great international interest in the previous meetings ( qPCR 2004 to qPCR 2011 ) led us to the decision to repeat the Symposium in spring 2013. We expect 500-600 participants coming from all over the world, in 2011 we could welcome participants from 56 contries, and roughly 30-40 international companies in the qPCR Industrial Exhibition.

We have set the date for the qPCR & NGS 2013 Event to 18th - 22nd March 2013. The event location is the central lecture hall complex and the foyer at TUM (Technical University of Munich) in Freising Weihenstephan, Germany (Google Maps link or Google Earth link). The TUM and the Biotech region around Munich is part of the largest Biotech cluster in Europe, located close to the Munich airport in the heart of Bavaria.

The focus of the qPCR & NGS 2013 Event will be on: Next Generation Thinking in Molecular Diagnostics

Leading academic researchers and industrial contributors in the field will participate in the symposium, which will be an arena for fruitful discussions between researchers of different backgrounds. The Symposium Talks, Poster Sessions, Industrial Exhibition and associated qPCR & NGS Application Workshops offer an overview of the present knowledge and future developments in qPCR, next generation sequencing and gene expression measurement technology and its wide applications in research.

The symposium will focus on 70 lectures and a huge poster exhibition will be presented by internationally recognised experts in their field. The emphasis will be on unbiased, didactic information exchange. Internationally renown speakers will be participating in a lively and exciting programme enabling the valuable exchange of information in the qPCR and Next Generation Sequencing field. One third of the talks will be presented by selected invited speakers, one third will be selected from the submitted abstracts and one third will be presented by qPCR & NGS related company R&D representatives. All scientific contributions will be published in the Symposium Proceedings (ISBN to be announced).

Full papers from selected invited academic and industrial speakers and application notes from industrial speakers will be published in a METHODS special issue "Transcriptional Biomarkers" edited by Michael W. Pfaffl (published January 2013). At the event all participants will receive a free print copy of this special Methods issue. Please have a look to our previous issue => "The ongoing evolution of qPCR" METHODS special qPCR Vol 50 issue 4 (April 2010)

Please register using the Internet based ConfTool registration and submission platform => http://registration.qPCR-NGS-2013.net


Symposium Talk and Poster sessions:

- Main Topic: Molecular diagnostics
- Main Topic: Next Generation Sequencing (NGS)
- Main Topic: Transcriptional Biomarkers
- High throughput analysis in qPCR
- Systems biology
- Single-cells diagnostics
- MIQE & QM strategies in qPCR
- non-coding RNAs - microRNA, siRNA, long non-coding RNAs
- Digital PCR & Nano-fluidics
- Pre-analytical Steps
- BioStatistics & BioInformatics
- qPCR & NGS data analysis
- Lunch Seminars:
- qBASEplus - data analysis lunch seminar
- GenEx - data analysis lunch seminar
- NGS data analysis lunch seminars
- more to be announced........

View our qPCR 2011 event trailer on YouTube => http://www.youtube.com/watch?v=cp8WwPyLW8Y

Download the latest Event Flyer => http://tinyurl.com/qPCR-NGS-2013

Please register using the Internet based ConfTool registration and submission platform => http://registration.qPCR-NGS-2013.net


GenEx 5 - A Powerful Tool For qPCR Data Analysis
Download a free trail version here => http://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. View our webpage => http://GenEx.gene-quantification.info

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, Principal Component Analysis, 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 trail version here => http://GenEx.gene-quantification.info

GenEx PDF user guides:
* GenEx user guide
* GenEx user guide - Exiqon Wizard
* GenEx user guide - Roche Wizard


Please forward this qPCR NEWS http://api.addthis.com/oexchange/0.8/forward/email/offer?url=http://qPCRnews.gene-quantification.info&title=Join+our+monthly+newsletter+on&username=qPCR-NEWS&email_template=&lng=en-us to further scientists and friends who are interested in qPCR !

Best regards,
Michael W. Pfaffl
responsible Editor of the Gene Quantification Pages

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