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

Editor www.Gene-Quantification.info via methods%40net.bio.net (by editor from gene-quantification.info)
Fri Sep 21 08:19:18 EST 2012


qPCR NEWS September 2012 - focus on CNA (circulating nucleic acids)
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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=20
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=20
* GenEx - a powerful tool for qPCR data analysis - download a free trial ve=
rsion  -  http://GenEx.gene-quantification.info

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If this newsletter is not displayed correctly by your email client, please =
use following
http://qPCRnews.gene-quantification.info
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UPDATE of various new papers - CNA (circulating nucleic acids) -  http://cn=
a.gene-quantification.info

Most of the DNA and RNA in the body is located within cells, but a small am=
ount of nucleic acids can also be found circulating freely in the blood. Th=
ese DNA, RNA and small RNA molecules are thought to come from dying cells t=
hat release their contents into the blood as they break down. The term "Cir=
culating Nucleic Acids =3DCNA" refers to segments of DNA or RNA found in th=
e bloodstream.
CNAs offers a non-invasive approach to a wide range in diagnostics of clini=
cal disorders that will allow the basic information necessary not only for =
use in predictive medicine but also for direct use in acute medicine. Furth=
er free CNAs offer unique opportunities for early diagnosis of clinical con=
ditions, e.g. in early cancer detection via microRNAs.


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Circulating Nucleic Acids - new papers
http://CNA.gene-quantification.info

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 bloo=
d
Bustamante-Aragon=E9s A, Rodr=EDguez de Alba M, Perlado S, Trujillo-Tiebas =
MJ, Arranz JP, D=EDaz-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 bre=
ast cancer detection
Schrauder MG, Strick R, Schulz-Wendtland R, Strissel PL, Kahmann L, Loehber=
g CR, Lux MP, Jud SM, Hartmann A, Hein A, Bayer CM, Bani MR, Richter S, Ada=
mietz 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-smal=
l cell lung cancer: association with clinical endpoints in a phase II clini=
cal 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 predictin=
g 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, Smi=
th 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, Ru=
dolph 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, Konis=
hi 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 Cen=
ter; 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 d=
endritic 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


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Second announcement qPCR & NGS Symposium in Freising-Weihenstephan
18-22 March 2013
http://www.qPCR-NGS-2013.net
Download the latest Event Flyer =3D> http://tinyurl.com/qPCR-NGS-2013

On behalf of the Organisation Committee and the Scientific Board it is a gr=
eat 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 Exh=
ibition and various 2-day Application Workshop to be held at the Center of =
Life Science in Freising Weihenstephan, Technische Universit=E4t M=FCnchen =
(Germany). The great international interest in the previous meetings ( qPCR=
 2004 to qPCR 2011 ) led us to the decision to repeat the Symposium in spri=
ng 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 inte=
rnational companies in the qPCR Industrial Exhibition.

We have set the date for the qPCR & NGS 2013 Event to 18th - 22nd March 201=
3. The event location is the central lecture hall complex and the foyer at =
TUM (Technical University of Munich) in Freising Weihenstephan, Germany (Go=
ogle 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 Thinki=
ng in Molecular Diagnostics

Leading academic researchers and industrial contributors in the field will =
participate in the symposium, which will be an arena for fruitful discussio=
ns between researchers of different backgrounds. The Symposium Talks, Poste=
r Sessions, Industrial Exhibition and associated qPCR & NGS Application Wor=
kshops offer an overview of the present knowledge and future developments i=
n qPCR, next generation sequencing and gene expression measurement technolo=
gy and its wide applications in research.

The symposium will focus on 70 lectures and a huge poster exhibition will b=
e presented by internationally recognised experts in their field. The empha=
sis will be on unbiased, didactic information exchange. Internationally ren=
own speakers will be participating in a lively and exciting programme enabl=
ing the valuable exchange of information in the qPCR and Next Generation Se=
quencing field. One third of the talks will be presented by selected invite=
d 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 Proceeding=
s (ISBN to be announced).

Full papers from selected invited academic and industrial speakers and appl=
ication notes from industrial speakers will be published in a METHODS speci=
al issue =93Transcriptional Biomarkers=94  edited by Michael W. Pfaffl (pub=
lished January 2013).  At the event all participants will receive a free pr=
int copy of this special Methods issue. Please have a look to our previous =
issue  =3D> =93The ongoing evolution of qPCR=94 METHODS special qPCR Vol 50=
 issue 4  (April 2010)

Please register using the Internet based ConfTool registration and submissi=
on platform =3D> http://registration.qPCR-NGS-2013.net


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Symposium Talk and Poster sessions:
http://sessions.qPCR-NGS-2013.net

- 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 =3D> http://www.youtube.com/wat=
ch?v=3Dcp8WwPyLW8Y

Download the latest Event Flyer =3D> http://tinyurl.com/qPCR-NGS-2013

Please register using the Internet based ConfTool registration and submissi=
on platform =3D> http://registration.qPCR-NGS-2013.net


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GenEx 5 -  A Powerful Tool For qPCR Data Analysis
Download a free trail version here =3D> http://GenEx.gene-quantification.in=
fo

GenEx is a popular software for qPCR data processing and analysis. Built in=
 a modular fashion GenEx provides a multitude of functionalities for the qP=
CR community, ranging from basic data editing and management to advanced cu=
tting-edge data analysis. View our webpage =3D> http://GenEx.gene-quantific=
ation.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 confiden=
ce. GenEx Standard=92s streamlined and user-friendly interface ensures mist=
ake-free data handling. Intuitive and powerful presentation tools allow pro=
fessional 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 yo=
u. Powerful enough to demonstrate feasibility it often proves sufficient fo=
r most users demands. Current features include parametric and non-parametri=
c statistical tests, Principal Component Analysis, and Artificial Neural Ne=
tworks. New features are continuously added to GenEx with close attention t=
o customers=92 needs.

New features
Sample handling and samples individual biology often contribute to confound=
ing experimental variability. By using the new nested ANOVA feature in GenE=
x version 5 user will be able to evaluate variance contributions from each =
step in the experimental procedure. With a good knowledge of the variance c=
ontributions, an appropriate distribution of experimental replicates can be=
 selected to minimize confounding variance and maximize the power of the ex=
perimental design! For experiments with complex features, such as for examp=
le multifactorial diseases, analytical relationships and classifications ma=
y not readily be available. The support vector machine feature in the new v=
ersion of GenEx is so easy to use that it will make this advanced supervise=
d classification method easily available to novice users, while providing a=
ccess to advanced parameters for experts.

Download a free trail version here =3D> http://GenEx.gene-quantification.in=
fo

GenEx PDF user guides:
* GenEx user guide=20
* GenEx user guide - Exiqon Wizard=20
* GenEx user guide - Roche Wizard


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 to further scientists and friends who are interested in qPCR !

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


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