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Nature protocols

Synthesis of N-succinimidyl 4-[18F]fluorobenzoate, an agent for labeling proteins and peptides with 18F pp1655 - 1661

Ganesan Vaidyanathan & Michael R Zalutsky

Published online: 09 November 2006 | doi:10.1038/nprot.2006.264


Drug-induced conditioned place preference and aversion in mice pp1662 - 1670

Christopher L Cunningham, Christina M Gremel & Peter A Groblewski

Published online: 16 November 2006 | doi:10.1038/nprot.2006.279

See also: Protocol by Alamed et al. | Protocol by Stromnes & Goverman | Protocol by Stromnes & Goverman


Two-day radial-arm water maze learning and memory task; robust resolution of amyloid-related memory deficits in transgenic mice pp1671 - 1679

Jennifer Alamed, Donna M Wilcock, David M Diamond, Marcia N Gordon & Dave Morgan

Published online: 09 November 2006 | doi:10.1038/nprot.2006.275

See also: Protocol by Cunningham et al. | Protocol by Stromnes & Goverman | Protocol by Stromnes & Goverman


Protocol for the analysis of n-alkanes and other plant-wax compounds and for their use as markers for quantifying the nutrient supply of large mammalian herbivores pp1680 - 1697

Hugh Dove & Robert W Mayes

Published online: 22 November 2006 | doi:10.1038/nprot.2006.225


Synthesis of cationic conjugated polymers for use in label-free DNA microarrays pp1698 - 1702

Bin Liu & Guillermo C Bazan

Published online: 16 November 2006 | doi:10.1038/nprot.2006.272


High-throughput transgenesis in Xenopus using I-SceI meganuclease pp1703 - 1710

Hajime Ogino, William B McConnell & Robert M Grainger

Published online: 16 November 2006 | doi:10.1038/nprot.2006.208


Fabrication of silicon nanowire devices for ultrasensitive, label-free, real-time detection of biological and chemical species pp1711 - 1724

Fernando Patolsky, Gengfeng Zheng & Charles M Lieber

Published online: 16 November 2006 | doi:10.1038/nprot.2006.227


Detection of apoptosis by terminal deoxynucleotidyl transferase-mediated dUTP nick-end labeling and acridine orange in Drosophila embryos and adult male gonads pp1725 - 1731

Eli Arama & Hermann Steller

Published online: 16 November 2006 | doi:10.1038/nprot.2006.235


Two-dimensional fluorescence difference gel electrophoresis for comparative proteomics profiling pp1732 - 1742

Nilesh S Tannu & Scott E Hemby

Published online: 16 November 2006 | doi:10.1038/nprot.2006.256

See also: Protocol by Sadowski et al.


Serial analysis of gene expression pp1743 - 1760

Min Hu & Kornelia Polyak

Published online: 16 November 2006 | doi:10.1038/nprot.2006.269


Single-nucleotide polymorphisms: analysis by mass spectrometry pp1761 - 1771

Sascha Sauer, Richard Reinhardt, Hans Lehrach & Ivo G Gut

Published online: 22 November 2006 | doi:10.1038/nprot.2006.257


Analysis of synaptic transmission in Caenorhabditis elegans using an aldicarb-sensitivity assay pp1772 - 1777

Timothy R Mahoney, Shuo Luo & Michael L Nonet

Published online: 16 November 2006 | doi:10.1038/nprot.2006.281


Quantitative proteomic approach to study subcellular localization of membrane proteins pp1778 - 1789

Pawel G Sadowski, Tom PJ Dunkley, Ian P Shadforth, Paul Dupree, Conrad Bessant, Julian L Griffin & Kathryn S Lilley

Published online: 16 November 2006 | doi:10.1038/nprot.2006.254

See also: Protocol by Tannu & Hemby


Positional proteomics: preparation of amino-terminal peptides as a strategy for proteome simplification and characterization pp1790 - 1798

Lucy McDonald & Robert J Beynon

Published online: 16 November 2006 | doi:10.1038/nprot.2006.317

See also: Protocol by Cox & Emili


Transfection of mammalian cells with connexins and measurement of voltage sensitivity of their gap junctions pp1799 - 1809

Cristiane del Corsso, Miduturu Srinivas, Marcia Urban-Maldonado, Alonso P Moreno, Alfredo G Fort, Glenn I Fishman & David C Spray

Published online: 16 November 2006 | doi:10.1038/nprot.2006.266


Active induction of experimental allergic encephalomyelitis pp1810 - 1819

Ingunn M Stromnes & Joan M Goverman

Published online: 16 November 2006 | doi:10.1038/nprot.2006.285

See also: Protocol by Cunningham et al. | Protocol by Stromnes & Goverman | Protocol by Alamed et al.


pC6-2/caspase-6 system to purify glutathione-S-transferase-free recombinant fusion proteins expressed in Escherichia coli pp1820 - 1827

Prabhat Kumar Purbey, P Cyril Jayakumar, Milind S Patole & Sanjeev Galande

Published online: 16 November 2006 | doi:10.1038/nprot.2006.310


Repeated measures of shoaling tendency in zebrafish (Danio rerio) and other small teleost fishes pp1828 - 1831

Dominic Wright & Jens Krause

Published online: 16 November 2006 | doi:10.1038/nprot.2006.287


Selecting effective siRNAs based on guide RNA structure pp1832 - 1839

Christian Köberle, Stefan H E Kaufmann & Volker Patzel

Published online: 16 November 2006 | doi:10.1038/nprot.2006.206


Metabolic expression of thiol-derivatized sialic acids on the cell surface and their quantitative estimation by flow cytometry pp1840 - 1851

Srinivasa-Gopalan Sampathkumar, Mark B Jones & Kevin J Yarema

Published online: 16 November 2006 | doi:10.1038/nprot.2006.252


Silver staining of proteins in polyacrylamide gels pp1852 - 1858

Mireille Chevallet, Sylvie Luche & Thierry Rabilloud

Published online: 22 November 2006 | doi:10.1038/nprot.2006.288


Simultaneous imaging of morphological plasticity and calcium dynamics in dendrites pp1859 - 1864

Susanne B Lang, Tobias Bonhoeffer & Christian Lohmann

Published online: 22 November 2006 | doi:10.1038/nprot.2006.267


In vitro 'sexual' evolution through the PCR-based staggered extension process (StEP) pp1865 - 1871

Huimin Zhao & Wenjuan Zha

Published online: 22 November 2006 | doi:10.1038/nprot.2006.309


Tissue subcellular fractionation and protein extraction for use in mass-spectrometry-based proteomics pp1872 - 1878

Brian Cox & Andrew Emili

Published online: 22 November 2006 | doi:10.1038/nprot.2006.273

See also: Protocol by McDonald & Beynon


Synthesis of S-adenosyl-L-methionine analogs and their use for sequence-specific transalkylation of DNA by methyltransferases pp1879 - 1886

Christian Dalhoff, Graz caronvydas Lukinavic caronius, Saulius Klimas caronauskas & Elmar Weinhold

Published online: 22 November 2006 | doi:10.1038/nprot.2006.253


Immunofluorescence in brain sections: simultaneous detection of presynaptic and postsynaptic proteins in identified neurons pp1887 - 1897

Edith M Schneider Gasser, Carolin J Straub, Patrizia Panzanelli, Oliver Weinmann, Marco Sassoè-Pognetto & Jean-Marc Fritschy

Published online: 22 November 2006 | doi:10.1038/nprot.2006.265


Behavioral testing and preliminary analysis of the hamster visual system pp1898 - 1905

G E Schneider, R G Ellis-Behnke, Y X Liang, P W F Kau, D K C Tay & K F So

Published online: 22 November 2006 | doi:10.1038/nprot.2006.240


High-throughput screening of small molecules for bioactivity and target identification in Caenorhabditis elegans pp1906 - 1914

Andrew R Burns, Trevor C Y Kwok, Al Howard, Ed Houston, Karl Johanson, Anthony Chan, Sean R Cutler, Peter McCourt & Peter J Roy

Published online: 22 November 2006 | doi:10.1038/nprot.2006.283


An ELISA method to measure inhibition of the COX enzymes pp1915 - 1921

Muriel Cuendet, Andrew D Mesecar, David L DeWitt & John M Pezzuto

Published online: 22 November 2006 | doi:10.1038/nprot.2006.308


High-throughput and sensitive assay to measure yeast cell growth: a bench protocol for testing genotoxic agents pp1922 - 1928

Martin Toussaint & Antonio Conconi

Published online: 22 November 2006 | doi:10.1038/nprot.2006.304


Highly selective enrichment of phosphorylated peptides using titanium dioxide pp1929 - 1935

Tine E Thingholm, Thomas J D Jørgensen, Ole N Jensen & Martin R Larsen

Published online: 22 November 2006 | doi:10.1038/nprot.2006.185


The multiple-choice formats (forms F and G) of the Benton Visual Retention Test as a tool to detect age-related memory changes in population-based studies and clinical settings pp1936 - 1938

Hélène Amieva, Yann Gaestel & Jean-François Dartigues

Published online: 22 November 2006 | doi:10.1038/nprot.2006.302


In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples pp1939 - 1946

Jan Hejátko, Ikram Blilou, Philip B Brewer, Jir caroní Friml, Ben Scheres & Eva Benková

Published online: 22 November 2006 | doi:10.1038/nprot.2006.333


Isolation of murine microglial cells for RNA analysis or flow cytometry pp1947 - 1951

Astrid E Cardona, DeRen Huang, Margaret E Sasse & Richard M Ransohoff

Published online: 22 November 2006 | doi:10.1038/nprot.2006.327


Passive induction of experimental allergic encephalomyelitis pp1952 - 1960

Ingunn M Stromnes & Joan M Goverman

Published online: 22 November 2006 | doi:10.1038/nprot.2006.284

See also: Protocol by Cunningham et al. | Protocol by Alamed et al. | Protocol by Stromnes & Goverman


A high-throughput fluorimetric assay for angiotensin I-converting enzyme pp1961 - 1964

Sylva L Schwager, Adriana K Carmona & Edward D Sturrock

Published online: 30 November 2006 | doi:10.1038/nprot.2006.305

See also: Protocol by Carmona et al.


Whole-genome multiple displacement amplification from single cells pp1965 - 1970

Claudia Spits, Cédric Le Caignec, Martine De Rycke, Lindsey Van Haute, André Van Steirteghem, Inge Liebaers & Karen Sermon

Published online: 30 November 2006 | doi:10.1038/nprot.2006.326


A continuous fluorescence resonance energy transfer angiotensin I-converting enzyme assay pp1971 - 1976

Adriana K Carmona, Sylva L Schwager, Maria A Juliano, Luiz Juliano & Edward D Sturrock

Published online: 30 November 2006 | doi:10.1038/nprot.2006.306

See also: Protocol by Schwager et al.


Combining patch-clamping of cells in brain slices with immunocytochemical labeling to define cell type and developmental stage pp1977 - 1986

Ragnhildur Káradóttir & David Attwell

Published online: 30 November 2006 | doi:10.1038/nprot.2006.261


An efficient Mitsunobu protocol for the one-pot synthesis of S-glycosyl amino-acid building blocks and their use in combinatorial spot synthesis of glycopeptide libraries pp1987 - 1994

Thomas Ziegler & Carsten Schips

Published online: 30 November 2006 | doi:10.1038/nprot.2006.307


Quantitative gas chromatography mass spectrometric analysis of 2'-deoxyinosine in tissue DNA pp1995 - 2002

Kok Seong Lim, Andrew Jenner & Barry Halliwell

Published online: 30 November 2006 | doi:10.1038/nprot.2006.301


Liposome polymerase chain reaction assay for the sub-attomolar detection of cholera toxin and botulinum neurotoxin type A pp2003 - 2011

Jeffrey T Mason, Lixin Xu, Zong-mei Sheng, Junkun He & Timothy J O'Leary

Published online: 30 November 2006 | doi:10.1038/nprot.2006.331


Development of a highly reproducible three-dimensional organotypic model of the oral mucosa pp2012 - 2018

Anna Dongari-Bagtzoglou & Helena Kashleva

Published online: 30 November 2006 | doi:10.1038/nprot.2006.323


Rapid, transient expression of fluorescent fusion proteins in tobacco plants and generation of stably transformed plants pp2019 - 2025

Imogen A Sparkes, John Runions, Anne Kearns & Chris Hawes

Published online: 30 November 2006 | doi:10.1038/nprot.2006.286


In vitro generation of germ cells from murine embryonic stem cells pp2026 - 2036

Jason A West, In-Hyun Park, George Q Daley & Niels Geijsen

Published online: 30 November 2006 | doi:10.1038/nprot.2006.303


Rapid identification of unknown heteroplasmic mutations across the entire human mitochondrial genome with mismatch-specific Surveyor Nuclease pp2037 - 2047

Sylvie Bannwarth, Vincent Procaccio & Veronique Paquis-Flucklinger

Published online: 30 November 2006 | doi:10.1038/nprot.2006.318


Tunable pharmacokinetics: modifying the in vivo half-life of antibodies by directed mutagenesis of the Fc fragment pp2048 - 2060

Tove Olafsen, Vania E Kenanova & Anna M Wu

Published online: 30 November 2006 | doi:10.1038/nprot.2006.322


Kinetic resolution of 4-chloro-2-(1-hydroxyalkyl)pyridines using Pseudomonas cepacia lipase pp2061 - 2067

Eduardo Busto, Vicente Gotor-Fernández & Vicente Gotor

Published online: 30 November 2006 | doi:10.1038/nprot.2006.335


Peterson olefination from alpha-silyl aldehydes pp2068 - 2074

Francisco J Pulido & Asunción Barbero

Published online: 30 November 2006 | doi:10.1038/nprot.2006.321


Patch-clamp recording from mossy fiber terminals in hippocampal slices pp2075 - 2081

Josef Bischofberger, Dominique Engel, Liyi Li, Jörg RP Geiger & Peter Jonas

Published online: 30 November 2006 | doi:10.1038/nprot.2006.312


Derivation of mouse embryonic stem cells pp2082 - 2087

Víte caronzslav Bryja, Sonia Bonilla & Ernest Arenas

Published online: 30 November 2006 | doi:10.1038/nprot.2006.355


Inexpensive low-oxygen incubators pp2088 - 2090

Woodring E Wright & Jerry W Shay

Published online: 07 December 2006 | doi:10.1038/nprot.2006.374


Probing 2-dimensional protein–protein interactions on model membranes pp2091 - 2103

Martynas Gavutis, Suman Lata & Jacob Piehler

Published online: 07 December 2006 | doi:10.1038/nprot.2006.270

See also: Protocol by Lata & Piehler


Synthesis of a multivalent chelator lipid for stably tethering histidine-tagged proteins onto membranes pp2104 - 2109

Suman Lata & Jacob Piehler

Published online: 07 December 2006 | doi:10.1038/nprot.2006.271

See also: Protocol by Gavutis et al.


A protocol for dissecting Drosophila melanogaster brains for live imaging or immunostaining pp2110 - 2115

Joy S Wu & Liqun Luo

Published online: 07 December 2006 | doi:10.1038/nprot.2006.336


Real-time assessment of three-dimensional cell aggregation in rotating wall vessel bioreactors in vitro pp2116 - 2127

Gregory P Botta, Prakash Manley, Steven Miller & Peter I Lelkes

Published online: 14 December 2006 | doi:10.1038/nprot.2006.311


Microfluidic culture platform for neuroscience research pp2128 - 2136

Jeong Won Park, Behrad Vahidi, Anne M Taylor, Seog Woo Rhee & Noo Li Jeon

Published online: 07 December 2006 | doi:10.1038/nprot.2006.316


Measuring herpes simplex virus thymidine kinase reporter gene expression in vitro pp2137 - 2142

Shahriar S Yaghoubi & Sanjiv S Gambhir

Published online: 07 December 2006 | doi:10.1038/nprot.2006.334


Split single-cell RT-PCR analysis of Purkinje cells pp2143 - 2151

Shigeyuki Esumi, Ryosuke Kaneko, Yoshimi Kawamura & Takeshi Yagi

Published online: 07 December 2006 | doi:10.1038/nprot.2006.343


Rayburst sampling, an algorithm for automated three-dimensional shape analysis from laser scanning microscopy images pp2152 - 2161

Alfredo Rodriguez, Douglas B Ehlenberger, Patrick R Hof & Susan L Wearne

Published online: 07 December 2006 | doi:10.1038/nprot.2006.313


Fluorescent microsphere technique to measure cerebral blood flow in the rat pp2162 - 2170

G De Visscher, M Haseldonckx & W Flameng

Published online: 07 December 2006 | doi:10.1038/nprot.2006.332


Profiling of DNA replication timing in unsynchronized cell populations pp2171 - 2177

Véronique Azuara

Published online: 07 December 2006 | doi:10.1038/nprot.2006.353


Culture of human mast cells from peripheral blood progenitors pp2178 - 2183

Hirohisa Saito, Atsushi Kato, Kenji Matsumoto & Yoshimichi Okayama

Published online: 07 December 2006 | doi:10.1038/nprot.2006.344


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