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Nature Reviews Clinical Oncology - Table of Contents alert Volume 6 Issue 6

NATURE REVIEWS CLINICAL ONCOLOGY

June 2009 Volume 6 Number 6

Visit Nature Reviews Clinical Oncology online to browse the journal.

Now available at
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Nature Reviews Clinical Oncology Impact Factor: 8.217*
(*Journal Citation Reports, Thomson, 2005)
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RESEARCH HIGHLIGHTS
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Imaging: PET is a valuable imaging tool for NET
p301 | doi:10.1038/nrclinonc.2009.57
http://links.ealert.nature.com/ctt?kn=39&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Chemotherapy: Treating older breast cancer patients
p302 | doi:10.1038/nrclinonc.2009.55
http://links.ealert.nature.com/ctt?kn=17&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

DNA therapy for head and neck cancer
p302 | doi:10.1038/nrclinonc.2009.60
http://links.ealert.nature.com/ctt?kn=2&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Prostate cancer: check it out
p303 | doi:10.1038/nrclinonc.2009.53
http://links.ealert.nature.com/ctt?kn=81&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Pathology: CTCs: a prognostic marker for prostate cancer
p303 | doi:10.1038/nrclinonc.2009.56
http://links.ealert.nature.com/ctt?kn=53&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Epidemiology: Blood type and pancreatic cancer
p303 | doi:10.1038/nrclinonc.2009.59
http://links.ealert.nature.com/ctt?kn=54&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Targeted therapies: Bevacizumab and chemotherapy in NSCLC
p304 | doi:10.1038/nrclinonc.2009.54
http://links.ealert.nature.com/ctt?kn=12&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Targeted therapies: Trastuzumab improves brain metastases outcomes
p304 | doi:10.1038/nrclinonc.2009.58
http://links.ealert.nature.com/ctt?kn=10&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

----------------------
NEWS AND VIEWS
----------------------
Medical oncology: Multimodality therapy in unresectable colorectal cancer
Daniel A. Popowich and Amy L. Halverson
p305 | doi:10.1038/nrclinonc.2009.65
Mathis et al. aimed to determine the effect of multimodality therapy on
recurrence and survival in patients with locally advanced colorectal cancer.
Use of multimodality treatment led to excellent local control with five
year disease-free and overall survival rates comparable to that of
stage-matched resectable colorectal cancers.
http://links.ealert.nature.com/ctt?kn=25&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Genetics: Predictive value of KRAS mutations in chemoresistant CRC
Astrid Lievre and Pierre Laurent-Puig
p306 | doi:10.1038/nrclinonc.2009.69
On the basis of the results of KRAS analysis from the CO.17 randomized,
controlled, phase III study by Karapetis et al., KRAS mutations have
emerged as a valid predictive marker associated with resistance to cetuximab
and lack of survival benefit from this anti-EGFR antibody in patients with
chemoresistant colorectal cancer.
http://links.ealert.nature.com/ctt?kn=77&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Targeted therapies: Combined lapatinib and paclitaxel in HER2-positive
breast cancer
Carlos A. Castaneda and Henry L. Gomez
p308 | doi:10.1038/nrclinonc.2009.68
A randomized phase III trial evaluated the effect of adding lapatinib to
paclitaxel as first-line therapy for patients with metastatic breast cancer
whose tumors were negative or untested for human epidermal growth factor
receptor 2 (HER2) overexpression. Progression-free survival was prolonged
significantly in patients with HER2-overexpressing tumors, which indicates
that lapatinib exerts its main effects via the HER2 pathway.
http://links.ealert.nature.com/ctt?kn=33&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Medical oncology: Endocrine-therapy-related symptoms and breast cancer
Aman U. Buzdar
p309 | doi:10.1038/nrclinonc.2009.67
The association of a treatment-related adverse effect with treatment success
has been reported in various clinical situations. The development of
vasomotor or joint symptoms is an indication of therapeutic benefit in
women receiving endocrine treatment for hormone-receptor-positive breast
cancer.
http://links.ealert.nature.com/ctt?kn=85&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Targeted therapies: Goldie-Coldman and bevacizumab beyond disease progression
Bruce J. Giantonio
p311 | doi:10.1038/nrclinonc.2009.66
Targeted therapies offer new hope in overcoming the challenges encountered
with conventional chemotherapy. However, little is known about the precise
mechanisms that cause resistance. These issues are discussed in light of
data from the BRiTE study, which indicate that the antiangiogenic effects
of bevacizumab might persist despite the development of resistance to
first-line chemotherapy.
http://links.ealert.nature.com/ctt?kn=9&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Radiotherapy: Effect of treatment interruptions in prostate cancer
Patrick Kupelian
p312 | doi:10.1038/nrclinonc.2009.71
Treatment interruptions during radiotherapy may have a negative effect
on patient outcome. D'Ambrosio et al. demonstrated that prolonging treatment
duration has an adverse effect in low-risk patients with prostate cancer.
Thus, limiting or modifying the overall elapsed time between treatments is
necessary.
http://links.ealert.nature.com/ctt?kn=18&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

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----------------------
REVIEWS
----------------------
Article series: Antiangiogenic Clinical Strategies
Branching morphogenesis and antiangiogenesis candidates: tip cells lead
the way
Peter Carmeliet, Frederik De Smet, Sonja Loges and Massimiliano Mazzone
p315 | doi:10.1038/nrclinonc.2009.64
Although VEGF-targeted anti-angiogenic agents have proved successful,
resistance to these targeted therapies remains a challenge. Therefore,
additional angiogenesis inhibitors are being developed to overcome
resistance. Carmeliet et al. discuss the molecules implicated in conferring
resistance to VEGF-targeted therapy, and describe how targeting
non-endothelial mechanisms in the tumor stroma may offer opportunities
to overcome resistance to VEGF-targeted therapy.
Abstract: http://links.ealert.nature.com/ctt?kn=47&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=68&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Article series: Antiangiogenic Clinical Strategies
Biomarkers of response and resistance to antiangiogenic therapy
Rakesh K. Jain, Dan G. Duda, Christopher G. Willett, Dushyant V. Sahani,
Andrew X. Zhu, Jay S. Loeffler, Tracy T. Batchelor and A. Gregory Sorensen
p327 | doi:10.1038/nrclinonc.2009.63
No validated biomarkers currently exist for appropriately selecting cancer
patients for antiangiogenic therapy. A number of potential systemic,
circulating, tissue and imaging biomarkers have emerged as suitable candidate
biomarkers, but all require prospective validation. The authors discuss the
current challenges in establishing biomarkers, the advantages and
disadvantages of systemic, circulating, tissue and imaging biomarkers, and
the future opportunities for validating biomarkers of antiangiogenic therapy.
Abstract: http://links.ealert.nature.com/ctt?kn=30&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=63&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Cancer micrometastases
Klaus Pantel, Catherine Alix-Panabieres and Sabine Riethdorf
Published online: 28 April 2009
p339 | doi:10.1038/nrclinonc.2009.44
The molecular characterization of disseminated tumor cells and circulating
tumor cells opens a new avenue for understanding cancer dormancy and might
contribute to the identification of metastatic stem cells with important
implications for future therapies. This Review focuses on the clinical
relevance of the latest research results on blood-borne cancer
micrometastasis in patients with cancer.
Abstract: http://links.ealert.nature.com/ctt?kn=57&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=41&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

Somatic EGFR mutations and efficacy of tyrosine kinase inhibitors in NSCLC
Klaus Pantel, Catherine Alix-Panabieres and Sabine Riethdorf
p352 | doi:10.1038/nrclinonc.2009.62
The authors summarize the literature and present an overview of the
fast-moving field of anti-EGFR therapeutics for the treatment of
non-small-cell lung cancer. They focus on describing the effects of somatic
EGFR mutations in selection of patients for treatment with tyrosine kinase
inhibitors and the influence of EGFR pathway regulation.
Abstract: http://links.ealert.nature.com/ctt?kn=62&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=82&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

----------------------
CASE STUDY
----------------------
Breast cancer and pregnancy: how safe is trastuzumab?
Hatem A. Azim Jr, Fedro A. Peccatori, Sarah J. Liptrott, Chiara Catania
and Aron Goldhirsch
p367 | doi:10.1038/nrclinonc.2009.48
Breast cancer during pregnancy is increasingly being encountered, and
establishing the safety of trastuzumab in this setting is important. The
case of a 29-year-old woman diagnosed with node-positive, HER2-positive
breast cancer is described. She underwent surgery followed by chemotherapy
and radiotherapy and then received trastuzumab. The authors suggest that
short-term trastuzumab exposure may be safe and they recommend careful
monitoring of the amniotic fluid and cardiac assessment of the mother
and fetus.
Abstract: http://links.ealert.nature.com/ctt?kn=23&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=38&m=33337471&r=MTc2NDg2OTc4MQS2&b=2&j=NTA2ODA2MzcS1&mt=1&rt=0

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EMBO Reports - Table of Contents alert Volume 10 Issue 6, pp 533-662

EMBO REPORTS TABLE OF CONTENTS

June 2009 Volume 10 Number 6, pp 533-662
(c) Copyright 2009 by the European Molecular Biology Organization
Now available at http://links.ealert.nature.com/ctt?kn=94&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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Contents: Volume 10, Number 6 (June 2009)

---------------------
EDITORIAL
---------------------


Dear Minister.
Howy Jacobs
http://links.ealert.nature.com/ctt?kn=133&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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SCIENCE AND SOCIETY
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OPINION

The end of theory in science?.
Massimo Pigliucci
http://links.ealert.nature.com/ctt?kn=18&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

VIEWPOINTS

Valorizing science: whose values? Science & Society Series on Convergence Research..
Bram De Jonge & Niels Louwaars
http://links.ealert.nature.com/ctt?kn=138&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


What is ELSA genomics? Science & Society Series on Convergence Research.
Hub Zwart & Annemiek Nelis
http://links.ealert.nature.com/ctt?kn=86&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Research in China. Experiences from 23 years of molecular genetics research in Shanghai.
Wolfgang Hennig
http://links.ealert.nature.com/ctt?kn=120&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

ANALYSES

The economics of biofuels. President Obama's emphasis on energy policy gives a boost to the alternative fuel business in the USA.
Howard Wolinsky
http://links.ealert.nature.com/ctt?kn=76&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Xeno's paradox. Why pig cells are better for tissue transplants than human cells.
Philip Hunter
http://links.ealert.nature.com/ctt?kn=84&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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REVIEWS
---------------------

MEETING REPORTS

Ubiquitin, infinitely seductive. Symposium on The Many Faces of Ubiquitin.
Michael Rape
http://links.ealert.nature.com/ctt?kn=66&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


The impact of non-coding RNAs. Workshop on New Functions of Regulatory RNAs in Pro- & Eukaryotes.
Jennifer L Boots & Isabella Moll
http://links.ealert.nature.com/ctt?kn=96&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Plant research accelerates along the (bio)informatics superhighway. Symposium on Plant Sensing, Response and Adaptation to the Environment.
José M Jiménez-Gómez & Julin N Maloof
http://links.ealert.nature.com/ctt?kn=52&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

LITERATURE REPORT

SPT5-like, a new component in plant RdDM.
Ming-Bo Wang & Elizabeth S Dennis
http://links.ealert.nature.com/ctt?kn=25&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

CONCEPTS

The non-apoptotic role of p53 in neuronal biology: enlightening the dark side of the moon.
Andrea Tedeschi & Simone Di Giovanni
http://links.ealert.nature.com/ctt?kn=10&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=35&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Circadian rhythms and memory: not so simple as cogs and gears.
Kristin L Eckel-Mahan & Daniel R Storm
http://links.ealert.nature.com/ctt?kn=123&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=42&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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SCIENTIFIC REPORTS
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Structural basis for the nuclease activity of a bacteriophage large terminase.
Callum Smits, Maria Chechik, Oleg V Kovalevskiy, Mikhail B Shevtsov, Andrew W Foster, Juan C Alonso & Alfred A Antson
http://links.ealert.nature.com/ctt?kn=33&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=9&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Regulation of actin function by protein kinase A-mediated phosphorylation of Limk1.
Kiran S Nadella, Motoyasu Saji, Naduparambil K Jacob, Emilia Pavel, Matthew D Ringel & Lawrence S Kirschner
http://links.ealert.nature.com/ctt?kn=22&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=50&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Axin localizes to the centrosome and is involved in microtubule nucleation.
Katsumi Fumoto, Moe Kadono, Nanae Izumi & Akira Kikuchi
http://links.ealert.nature.com/ctt?kn=117&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=16&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Plexin-B1 is a GTPase activating protein for M-Ras, remodelling dendrite morphology.
Yasuhiro Saito, Izumi Oinuma, Satoshi Fujimoto & Manabu Negishi
http://links.ealert.nature.com/ctt?kn=21&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=139&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


G-protein signalling negatively regulates the stability of aryl hydrocarbon receptor.
Asuka Nakata, Daisuke Urano, Yoshiaki Fujii-Kuriyama, Norikazu Mizuno, Kenji Tago & Hiroshi Itoh
http://links.ealert.nature.com/ctt?kn=12&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=60&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Distinct roles of ATR and DNA-PKcs in triggering DNA damage responses in ATM-deficient cells.
Nozomi Tomimatsu, Bipasha Mukherjee & Sandeep Burma
http://links.ealert.nature.com/ctt?kn=43&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=69&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Sequoia regulates cell fate decisions in the external sensory organs of adult Drosophila.
Hillary K Andrews, Nikolaos Giagtzoglou, Shinya Yamamoto, Karen L Schulze & Hugo J Bellen
http://links.ealert.nature.com/ctt?kn=62&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=47&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


COP9 signalosome controls the Carma1[ndash]Bcl10[ndash]Malt1 complex upon T-cell stimulation.
Verena Welteke, Andrea Eitelhuber, Michael Duwel, Katrin Schweitzer, Michael Naumann & Daniel Krappmann
http://links.ealert.nature.com/ctt?kn=125&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=88&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family.
Natacha Bies-Etheve, Dominique Pontier, Sylvie Lahmy, Claire Picart, Danielle Vega, Richard Cooke & Thierry Lagrange
http://links.ealert.nature.com/ctt?kn=72&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=54&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0


Diatom PtCPF1 is a new cryptochrome/photolyase family member with DNA repair and transcription regulation activity.
Sacha Coesel, Manuela Mangogna, Tomoko Ishikawa, Marc Heijde, Alessandra Rogato, Giovanni Finazzi, Takeshi Todo, Chris Bowler & Angela Falciatore
http://links.ealert.nature.com/ctt?kn=57&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0
http://links.ealert.nature.com/ctt?kn=143&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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SCIENCE AND SOCIETY
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CORRIGENDUM

Molecular discrimination of structurally equivalent Lys 63-linked and linear polyubiquitin chains.
David Komander, Francisca Reyes-Turcu, Julien D F Licchesi, Peter Odenwaelder, Keith D Wilkinson & David Barford
http://links.ealert.nature.com/ctt?kn=128&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

ERRATUM

Structural basis of N-end rule substrate recognition in Escherichia coli by the ClpAP adaptor protein ClpS.
Verena J Schuenemann, Stephanie M Kralik, Reinhard Albrecht, Sukhdeep K Spall, Kaye N Truscott, David A Dougan & Kornelius Zeth
http://links.ealert.nature.com/ctt?kn=85&m=33337427&r=MTc2MDI0MTQ4MQS2&b=2&j=NTA2NzkzNTIS1&mt=1&rt=0

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Monday, June 1, 2009

Latest PhD Studentships - 2 June 2009


Welcome to the FindAPhD weekly Newsletter. Listed below are the latest research projects to be advertised on FindAPhD.com.

University of Birmingham
Strategic Change in the UK Railway Network through Reorganization and Major Projects

University of Birmingham
Statistical Analysis of Key Performance Indicators in the Railway Industry

University of Birmingham
National Rail Freight Movement in Great Britain – Lingering Death or Imminent Recovery?

Cranfield University
EPSRC Funded PhD studentship in Modelling of Spraying Mechanisms

University of Surrey
Is quantum tunnelling involved in mutation?

University of Surrey
Metabolic Investigations of Mycobacteria

Veterinary Laboratories Agency
From Genome to Phenome: Generating and analysing data to predict Salmonella's phenotype from genomic information using a systems biology approach - Offered with Royal Holloway (University of London)

University of Surrey
The function of genetic variants in the Interleukin 6 promoter.

University of Surrey
Promoter methylation and gene expression in cardiovascular disease and cancer

Peninsula Medical School
The development of competence and confidence to prescribe in undergraduate medical students: PCMD/GS 0011

Bournemouth University
Cross Platform Media Practice

Peninsula Medical School
Mouth inflammation and the microcirculation Ref: PCMD/GS0012

University of Aberdeen
Farming Outside the Fence?: An Analysis of Legal and Policy Supports for Non-Commercial Farming in Scotland

Bournemouth University
3D Hand Motion Capture for Human Computer Interaction

University of Oxford
De novo gene prediction for ecologically- and evolutionarily-relevant species

Many more projects have been added this week! Click here to view them all!

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Cell Research - Table of Contents alert Volume 19 Issue 6

CELL RESEARCH

June 2009 Volume 19 Number 6, pp 669 - 796


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Cell Research publishes articles, research and reviews covering all disciplines
within cell biology and molecular biology. With an international authorship and
circulation CR is a great outlet for your research.

Submit your paper today at:
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- Cell growth and differentiation
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Published 12 times a year, Cell Research is an excellent source for the latest
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----------------------
RESEARCH HIGHLIGHT
----------------------
Moving away from PPARs - EGFR signaling and the anti-cancer effects of thiazolinedinediones
Jesse Roman
Abstract: http://links.ealert.nature.com/ctt?kn=57&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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----------------------
REVIEW
----------------------
Adult neural stem cells in the mammalian central nervous system
Dengke K Ma, Michael A Bonaguidi, Guo-li Ming and Hongjun Song
Abstract: http://links.ealert.nature.com/ctt?kn=42&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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----------------------
ORIGINAL ARTICLES
----------------------
WNT signaling regulates self-renewal and differentiation of prostate cancer cells with
stem cell characteristics
Isabelle Bisson and David M Prowse
Abstract: http://links.ealert.nature.com/ctt?kn=39&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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Feeder-free maintenance of hESCs in mesenchymal stem cell-conditioned media: distinct
requirements for TGF-[beta] and IGF-II
Rosa Montes, Gertrudis Ligero, Laura Sanchez, Purificacion Catalina, Teresa de la Cueva,
Ana Nieto, Gustavo J Melen, Ruth Rubio, Javier Garcia-Castro, Clara Bueno and Pablo Menendez
Abstract: http://links.ealert.nature.com/ctt?kn=27&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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Pancreas-specific Pten deficiency causes partial resistance to diabetes and elevated
hepatic AKT signaling
Zan Tong, Yan Fan, Weiqi Zhang, Jun Xu, Jing Cheng, Mingxiao Ding and Hongkui Deng
Abstract: http://links.ealert.nature.com/ctt?kn=21&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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Troglitazone inhibits cell proliferation by attenuation of epidermal growth factor receptor
signaling independent of peroxisome proliferator-activated receptor [gamma]
Xiaoqi Li, Xuanming Yang, Youli Xu, Xuejun Jiang, Xin Li, Fajun Nan and Hong Tang
Abstract: http://links.ealert.nature.com/ctt?kn=68&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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CIN85 associates with endosomal membrane and binds phosphatidic acid
Jing Zhang, Xiudan Zheng, Xiao Yang and Kan Liao
Abstract: http://links.ealert.nature.com/ctt?kn=65&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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High levels of dRYBP induce apoptosis in Drosophila imaginal cells through the activation
of reaper and the requirement of trithorax, dredd and dFADD
Inma Gonzalez and Ana Busturia
Abstract: http://links.ealert.nature.com/ctt?kn=26&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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TRAIL receptor mediates inflammatory cytokine release in an NF-[kappa]B-dependent manner
Wanhu Tang, Weimin Wang, Yaxi Zhang, Shilian Liu, Yanxin Liu and Dexian Zheng
Abstract: http://links.ealert.nature.com/ctt?kn=77&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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Functional conservation of the meiotic genes SDS and RCK in male meiosis in the monocot rice
Ling Chang, Hong Ma and Hong-Wei Xue
Abstract: http://links.ealert.nature.com/ctt?kn=5&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
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The adenoviral E1A protein displaces corepressors and relieves gene repression by unliganded
thyroid hormone receptors in vivo
Yukiyasu Sato, Andrew Ding, Rachel A Heimeier, Ahmed F Yousef, Joe S Mymryk, Paul G Walfish and Yun-Bo Shi
Abstract: http://links.ealert.nature.com/ctt?kn=50&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=44&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0

----------------------
LETTER TO THE EDITOR
----------------------
RLEdb: a database of rate-limiting enzymes and their regulation in human, rat, mouse, yeast and E. coli
Min Zhao, Xin Chen, Ge Gao, Louis Tao and Liping Wei
http://links.ealert.nature.com/ctt?kn=41&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0

----------------------
CORRIGENDUM
----------------------
WWP2 promotes degradation of transcription factor OCT4 in human embryonic stem cells
Huiming Xu, Weicheng Wang, Chunliang Li, Hongyao Yu, Acong Yang, Beibei Wang and Ying Jin
http://links.ealert.nature.com/ctt?kn=51&m=33326705&r=MTc2MDE3NzA4MwS2&b=2&j=NTA2MTA1MzIS1&mt=1&rt=0


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Nature Cell Biology contents: June 2009 Volume 11 Number 6, pp 667 - 784

NATURE CELL BIOLOGY

June 2009 Volume 11 Number 6, pp 667 - 784

Visit Nature Cell Biology online to browse the journal.

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=====================================================================

----------------------
EDITORIAL
----------------------
How robust is your data? p667
New rules for the presentation of statistics.
doi:10.1038/ncb0609-667
http://links.ealert.nature.com/ctt?kn=11&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

----------------------
BOOK REVIEW
----------------------
New fashion models p668
Christian Braendle and Marie-Anne Felix review Emerging Model Organisms:
A Laboratory Manual, volume 1 by Christian Braendle and Marie-Anne Felix
doi:10.1038/ncb0609-668
http://links.ealert.nature.com/ctt?kn=61&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

----------------------
REVIEW
----------------------
STIMulating store-operated Ca2+ entry pp669 - 677
Michael D. Cahalan
doi:10.1038/ncb0609-669
Abstract: http://links.ealert.nature.com/ctt?kn=108&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
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----------------------
NEWS AND VIEWS
----------------------
Wicked views on stem cell news pp678 - 679
Stem cells achieve the remarkable task of generating both identical copies of
themselves and lineage-restricted daughter cells that ultimately undergo
terminal differentiation. The differential regulation of ribosomal protein
biosynthesis helps to generate these two outcomes in Drosophila melanogaster.
Ralph A. Neumuller and Juergen A. Knoblich
doi:10.1038/ncb0609-678
http://links.ealert.nature.com/ctt?kn=102&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

Inverted rod nuclei see the light pp680 - 681
Eighty years of microscopy have established a conventional view of nuclear
organization: dark-staining heterochromatin at the nuclear periphery and
light-staining euchromatin in the interior. This nuclear architecture is inverted
in rod cells of nocturnal mammals, demonstrating a unique functional nuclear
genome reorganization specifically adapted for light transmission.
Christopher Eskiw and Peter Fraser
doi:10.1038/ncb0609-680
http://links.ealert.nature.com/ctt?kn=95&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

MicroRNA-mediated regulation of synaptic palmitoylation: shrinking fat spines
pp681 - 682
Local regulation of protein translation is essential for synaptic plasticity.
MicroRNA-mediated alteration in expression of an enzyme that regulates
the palmitoylation of a specific synaptic protein determines dendritic spine size.
Damien Carrel and Bonnie L. Firestein
doi:10.1038/ncb0609-681
http://links.ealert.nature.com/ctt?kn=98&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

----------------------
RESEARCH HIGHLIGHTS
----------------------
Research highlights p684
doi:10.1038/ncb0609-684
http://links.ealert.nature.com/ctt?kn=16&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

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----------------------
ARTICLES
----------------------
Live-imaging of single stem cells within their niche reveals that a U3snoRNP
component segregates asymmetrically and is required for self-renewal in
Drosophila pp685 - 693
It is unclear how the growth rate and size of asymmetrically dividing stem
cells are regulated. The U3snoRNP component Wicked, required for pre-ribosomal
RNA maturation and thus ribosome formation, is localized asymmetrically and is
critical for stem cell maintenance and function.
Pierre Fichelson et al.
doi:10.1038/ncb1874
Abstract: http://links.ealert.nature.com/ctt?kn=83&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=29&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

p53 controls cancer cell invasion by inducing the MDM2-mediated degradation
of Slug pp694 - 704
The tumour suppressor p53 inhibits cancer cell proliferation and induces
apoptosis. A new tumour-suppressive effect of p53 is to induce MDM2-dependent
degradation of the tumour invasion factor Slug, resulting in reduced metastasis.
Shu-Ping Wang et al.
doi:10.1038/ncb1875
Abstract: http://links.ealert.nature.com/ctt?kn=94&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=31&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

A functional screen implicates microRNA-138-dependent regulation of the
depalmitoylation enzyme APT1 in dendritic spine morphogenesis pp705 - 716
Mir-138, identified in a screen for microRNAs associated with synapses,
regulates dendritic spine morphogenesis through APT-1, a depalmitoylation
enzyme that modulates the membrane localization of the heterotrimeric
G protein alpha subunit.
Gabriele Siegel et al.
doi:10.1038/ncb1876
Abstract: http://links.ealert.nature.com/ctt?kn=50&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=22&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

----------------------
LETTERS
----------------------
The mitotic kinesin-14 Ncd drives directional microtubule-microtubule
sliding pp717 - 723
Kinesin-14 (Ncd in Drosophila, and Klp2 in fission yeast) is a microtubule-based
motor important for spindle assembly. Ncd and Klp2 mediate both sliding
of anti-parallel microtubules and crosslinking of parallel ones.
Gero Fink et al.
doi:10.1038/ncb1877
Abstract: http://links.ealert.nature.com/ctt?kn=35&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=118&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

The kinesin-14 Klp2 organizes microtubules into parallel bundles by an
ATP-dependent sorting mechanism pp724 - 730
Kinesin-14 (Ncd in Drosophila, and Klp2 in fission yeast) is a microtubule-based
motor important for spindle assembly. Ncd and Klp2 mediate both sliding of
anti-parallel microtubules and crosslinking of parallel ones.
Marcus Braun, Douglas R. Drummond, Robert A. Cross and Andrew D. McAinsh
doi:10.1038/ncb1878
Abstract: http://links.ealert.nature.com/ctt?kn=40&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=64&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

Local auxin biosynthesis modulates gradient-directed planar polarity in
Arabidopsis pp731 - 738
Arabidopsis root-hair position and orientation in epithelial cells is directed by
an auxin gradient maximum at the root tip. The Raf-like kinase CTR1 negatively
regulates local auxin biosynthesis in the root to determine root hair position.
Yoshihisa Ikeda et al.
doi:10.1038/ncb1879
Abstract: http://links.ealert.nature.com/ctt?kn=45&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=32&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

The Patched dependence receptor triggers apoptosis through a DRAL-caspase-9
complex pp739 - 746
Shh acts as a survival factor and in its absence its receptor, Patched, induces
cell death by recruiting a caspase-activating complex formed by the adaptor
protein DRAL, the CARD domain containing proteins TUCAN or NALP1, and caspase-9.
Frederic Mille et al.
doi:10.1038/ncb1880
Abstract: http://links.ealert.nature.com/ctt?kn=92&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=97&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

The bioenergetic and antioxidant status of neurons is controlled by
continuous degradation of a key glycolytic enzyme by APC/C-Cdh1 pp747 - 752
The glycolytic enzyme Pfkfb3 is shown to be constitutively ubiquitylated by
the APC/C ligase and degraded in neurons. These findings might explain
the lower glycolytic metabolism in these cells relative to astrocytes.
Angel Herrero-Mendez et al.
doi:10.1038/ncb1881
Abstract: http://links.ealert.nature.com/ctt?kn=80&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=82&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

Replication stress induces sister-chromatid bridging at fragile site loci
in mitosis pp753 - 760
The FANC and the BLM pathways collaborate during mitosis to prevent
micronucleation and chromosome abnormalities.
Kok Lung Chan, Timea Palmai-Pallag, Songmin Ying and Ian D. Hickson
doi:10.1038/ncb1882
Abstract: http://links.ealert.nature.com/ctt?kn=18&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
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The FANC pathway and BLM collaborate during mitosis to prevent micro-nucleation
and chromosome abnormalities pp761 - 768
The FANC and the BLM pathways collaborate during mitosis to prevent
micronucleation and chromosome abnormalities.
Valeria Naim and Filippo Rosselli
doi:10.1038/ncb1883
Abstract: http://links.ealert.nature.com/ctt?kn=91&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=34&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

Deficiency of MIP/MTMR14 phosphatase induces a muscle disorder by
disrupting Ca2+ homeostasis pp769 - 776
Mutations in the MIP phosphatase MTMR14 are associated with human
autosomal centronuclear myopathy. Mice that lack MIP have impaired muscle
performance and enhanced fatigue due to the accumulation of MIP substrates
PtdIns(3,5)P2 and PtdIns(3,4)P2, which cause alterations in intracellular Ca2+ levels.
Jinhua Shen et al.
doi:10.1038/ncb1884
Abstract: http://links.ealert.nature.com/ctt?kn=73&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=28&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

TGF-beta signalling is regulated by Schnurri-2-dependent nuclear translocation
of CLIC4 and consequent stabilization of phospho-Smad2 and 3 pp777 - 784
In keratinocytes, the multifunctional protein CLIC4 mediates TGF-beta-dependent
growth inhibition through interaction with Schnurri-2, which is essential for
CLIC4 nuclear translocation. Once in the nucleus, CLIC4 associates with
phospho-Smad2 and 3 and protects them from dephosphorylation by nuclear phosphatases.
Anjali Shukla et al.
doi:10.1038/ncb1885
Abstract: http://links.ealert.nature.com/ctt?kn=44&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=65&m=33325053&r=MTc2NDEyMTk0MQS2&b=2&j=NTA2MDY3NDMS1&mt=1&rt=0

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=====================================================================

----------------------
EDITORIAL
----------------------
No fruit fly an island? p395
Methods to study the behavior of Drosophila sp. in the context
of a group may deepen our understanding of the neural mechanisms
underlying social behavior.
doi:10.1038/nmeth0609-395
http://links.ealert.nature.com/ctt?kn=80&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
CORRESPONDENCE
----------------------
Predicting microRNA targets and functions: traps for the
unwary pp397 - 398
William Ritchie, Stephane Flamant and John E J Rasko
doi:10.1038/nmeth0609-397
http://links.ealert.nature.com/ctt?kn=123&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
RESEARCH HIGHLIGHTS
----------------------
Snapshots of the cell surface p401
Researchers develop an approach to selectively isolate and profile
cell-surface proteins by targeting the glycopeptides, a strategy that
could be used to generate an atlas of cell-surface protein
'barcodes'.
Allison Doerr
doi:10.1038/nmeth0609-401
http://links.ealert.nature.com/ctt?kn=128&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Micro-reprogramming pp402 - 403
Researchers use microRNAs to more efficiently generate induced
pluripotent stem cells in the mouse.
Natalie de Souza
doi:10.1038/nmeth0609-402a
http://links.ealert.nature.com/ctt?kn=49&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

A functional blueprint of E. coli pp402 - 403
Researchers integrate proteomics data with genomic-context analysis
and develop a protein-function prediction tool to annotate functional
orphans in Escherichia coli.
Allison Doerr
doi:10.1038/nmeth0609-402b
http://links.ealert.nature.com/ctt?kn=33&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

News in brief p403
doi:10.1038/nmeth0609-403
http://links.ealert.nature.com/ctt?kn=16&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Nature's pH meter p404
A new pH nanosensor changes color in acidic cell compartments by
forming an unusual four-stranded DNA structure.
Wayne Peng
doi:10.1038/nmeth0609-404
http://links.ealert.nature.com/ctt?kn=17&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

TACLing rare genetic variants p406
By combining methods for selective genome capture, allele enrichment
and array resequencing, researchers create a pipeline for
high-throughput variant detection.
Nicole Rusk
doi:10.1038/nmeth0609-406
http://links.ealert.nature.com/ctt?kn=19&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Flight patterns p408
Flying animals ranging from bugs to bats use a common mechanism to
maintain control in turns a discovery that reveals hidden advantages
of flapping-wing flight.
Michael Eisenstein
doi:10.1038/nmeth0609-408
http://links.ealert.nature.com/ctt?kn=170&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
NEWS AND VIEWS
----------------------
A stress test for mass spectrometry-based proteomics pp411 - 412
A multilaboratory study attempts to dispel some of the notions of the
irreproducibility of mass spectrometry-based proteomics by
pinpointing where the methodological problems are and where
challenges remain.
Ruedi Aebersold
doi:10.1038/nmeth.f.255
http://links.ealert.nature.com/ctt?kn=31&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

The ethomics era? pp413 - 414
Applying modern machine-vision techniques to the study of animal
behavior, two groups developed systems that quantify many aspects
of the complex social behaviors of Drosophila melanogaster. These
software tools will enable high-throughput screens that seek to
uncover the cellular and molecular underpinnings of behavior.
Michael Reiser
doi:10.1038/nmeth0609-413
http://links.ealert.nature.com/ctt?kn=156&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
REVIEW
----------------------
Transposon-mediated genome manipulation in vertebrates pp415 - 422
Zoltan Ivics et al.
doi:10.1038/nmeth.1332
Abstract: http://links.ealert.nature.com/ctt?kn=102&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=147&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
ANALYSIS
----------------------
A HUPO test sample study reveals common problems in mass
spectrometry-based proteomics pp423 - 430
A multilaboratory analysis characterized the ability of 27 different
labs to identify 20 proteins at equimolar concentrations in a highly
purified test sample mixture using mass spectrometry. The results
show that while the technology is reproducible, many common
experimental problems arise, and improved search engines
and databases are still needed.
Alexander W Bell et al.
doi:10.1038/nmeth.1333
Abstract: http://links.ealert.nature.com/ctt?kn=127&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=84&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
BRIEF COMMUNICATIONS
----------------------
Versatile P[acman] BAC libraries for transgenesis studies in
Drosophila melanogaster pp431 - 434
Two bacterial artificial chromosome (BAC) libraries, spanning almost
the entire D. melanogaster genome in insert sizes of 20 and 80 kb,
that allow easy integration into the fruit fly genome at defined
docking sites provide a rich resource to study gene expression
and function.
Koen J T Venken et al.
doi:10.1038/nmeth.1331
Abstract: http://links.ealert.nature.com/ctt?kn=53&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=120&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

A toolkit for high-throughput, cross-species gene engineering in
Drosophila pp435 - 437
Genomic fosmid libraries for Drosophila melanogaster and Drosophila
pseudoobscura with an average insert size of 36 kilobases can easily
be tagged and inserted into the fly genome. These resources will be
valuable for evolutionary and developmental studies in the fly.
Radoslaw K Ejsmont et al.
doi:10.1038/nmeth.1334
Abstract: http://links.ealert.nature.com/ctt?kn=131&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=97&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

TU-tagging: cell type-specific RNA isolation from intact complex
tissues pp439 - 441
Expressing uracil phosphoribosyltransferase in specific tissues in
the fly allows the incorporation of 4-thiouracil into newly
synthesized RNA in vivo. The thio-labeled RNA can then be isolated
and analyzed by routine procedures allowing the cell type-specific
measure of RNA synthesis and decay rates.
Michael R Miller, Kristin J Robinson, Michael D Cleary and Chris
Q Doe
doi:10.1038/nmeth.1329
Abstract: http://links.ealert.nature.com/ctt?kn=144&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=11&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Rapid creation and quantitative monitoring of high coverage shRNA
libraries pp443 - 445
On-array synthesis of over 20,000 shRNAs at a coverage of ~30
shRNAs per gene, followed by cloning into lentiviral shRNA libraries
and deconvolution of the complex libraries by deep sequencing,
ensures high confidence in the observed knockdown phenotypes
with low false-negative rates and few off-target hits.
Michael C Bassik et al.
doi:10.1038/nmeth.1330
Abstract: http://links.ealert.nature.com/ctt?kn=27&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=177&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Automated unrestricted multigene recombineering for multiprotein
complex production pp447 - 450
A modular, automatable system using recombineering to facilitate
multigene assembly, called Acembl, provides a streamlined approach
for expressing multiprotein complexes in Escherichia coli.
Christoph Bieniossek et al.
doi:10.1038/nmeth.1326
Abstract: http://links.ealert.nature.com/ctt?kn=174&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=126&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

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=====================================================================

----------------------
ARTICLES
----------------------
High-throughput ethomics in large groups of Drosophila pp451 - 457
An automated system for tracking large numbers of fruit flies over
time and for detecting their behaviors is presented, and should allow
high-throughput quantitative studies of fly behavior.
Kristin Branson et al.
doi:10.1038/nmeth.1328
Abstract: http://links.ealert.nature.com/ctt?kn=82&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=166&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Tissue tectonics: morphogenetic strain rates, cell shape change and
intercalation pp458 - 464
As tissues mature, they undergo shape changes that are the result of
individual and collective cell movement triggered by cell-autonomous
behavior or external forces. By measuring patterns of strain rates
the authors can model these forces and quantify tissue shaping
behavior.
Guy B Blanchard et al.
doi:10.1038/nmeth.1327
Abstract: http://links.ealert.nature.com/ctt?kn=179&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=79&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
TECHNOLOGY FEATURE
----------------------
In vivo molecular imaging: the inside job pp465 - 469
In a short period of time, in vivo molecular imaging systems have
become indispensable research tools in many clinical and basic
research laboratories. But developers are now pushing the technology
further in the hopes of making a new generation of platforms with
greater accuracy and sensitivity for a wider array of applications.
Nathan Blow
doi:10.1038/nmeth0609-465
http://links.ealert.nature.com/ctt?kn=96&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

----------------------
APPLICATION NOTES
----------------------
Characterization of phosphoprotein signaling in limited biological
samples using the Cell Biosciences CB1000
David W Voehringer and Walter A Ausserer
Abstract: http://links.ealert.nature.com/ctt?kn=116&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=32&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Automated selection and collection of pluripotent stem cell colonies
using the CellCelectorTM
Simone Haupt et al.
Abstract: http://links.ealert.nature.com/ctt?kn=160&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=176&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Kodak X-Sight 761 Nanospheres effectively label living cells for
longitudinal cell tracking in mice
W Matthew Leevy et al.
Abstract: http://links.ealert.nature.com/ctt?kn=146&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=46&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

Mutation profiling in tumor samples using the Sequenom
OncoCartaTM Panel
Marisa Pearce et al.
Abstract: http://links.ealert.nature.com/ctt?kn=136&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0
Article: http://links.ealert.nature.com/ctt?kn=130&m=33324821&r=MTc2NjExMzUwMAS2&b=2&j=NTA2MDUyMzMS1&mt=1&rt=0

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