Volume 1; Issue 4

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Nature Protocols
Volume 1; Issue 4

Nature Protocols

Volume 1; Issue 4

1

Highly selective enrichment of phosphorylated peptides using titanium dioxide

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 630 KB

english, 2006

2

Selecting effective siRNAs based on guide RNA structure

Köberle, Christian, Kaufmann, Stefan H E, Patzel, Volker

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 438 KB

english, 2006

3

High-throughput transgenesis in Xenopus using I-SceI meganuclease

Ogino, Hajime, McConnell, William B, Grainger, Robert M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 256 KB

english, 2006

4

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

Dove, Hugh, Mayes, Robert W

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 414 KB

english, 2006

5

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

Patolsky, Fernando, Zheng, Gengfeng, Lieber, Charles M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 1.23 MB

english, 2006

6

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

Arama, Eli, Steller, Hermann

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 279 KB

english, 2006

7

Behavioral testing and preliminary analysis of the hamster visual system

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 436 KB

english, 2006

8

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 539 KB

english, 2006

9

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

Dalhoff, Christian, Lukinavičius, Gražvydas, Klimašauskas, Saulius, Weinhold, Elmar

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 291 KB

english, 2006

10

Quantitative proteomic approach to study subcellular localization of membrane proteins

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 382 KB

english, 2006

11

Two-dimensional fluorescence difference gel electrophoresis for comparative proteomics profiling

Tannu, Nilesh S, Hemby, Scott E

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 575 KB

english, 2006

12

Single-nucleotide polymorphisms: analysis by mass spectrometry

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 335 KB

english, 2006

13

Standardized reagents and protocols for engineering zinc finger nucleases by modular assembly

Wright, David A, Thibodeau-Beganny, Stacey, Sander, Jeffry D, Winfrey, Ronnie J, Hirsh, Andrew S, Eichtinger, Magdalena, Fu, Fengli, Porteus, Matthew H, Dobbs, Drena, Voytas, Daniel F

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 528 KB

english, 2006

14

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

Káradóttir, Ragnhildur, Attwell, David

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 544 KB

english, 2006

15

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

Vaidyanathan, Ganesan, Zalutsky, Michael R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 189 KB

english, 2006

16

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 607 KB

english, 2006

17

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 664 KB

english, 2006

18

Simultaneous imaging of morphological plasticity and calcium dynamics in dendrites

Lang, Susanne B, Bonhoeffer, Tobias, Lohmann, Christian

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 301 KB

english, 2006

19

Serial analysis of gene expression

Hu, Min, Polyak, Kornelia

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 425 KB

english, 2006

20

Probing 2-dimensional protein–protein interactions on model membranes

Gavutis, Martynas, Lata, Suman, Piehler, Jacob

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 888 KB

english, 2006

21

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

Lata, Suman, Piehler, Jacob

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 145 KB

english, 2006

22

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

Liu, Bin, Bazan, Guillermo C

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 174 KB

english, 2006

23

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

Cox, Brian, Emili, Andrew

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 229 KB

english, 2006

24

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 310 KB

english, 2006

25

Drug-induced conditioned place preference and aversion in mice

Cunningham, Christopher L, Gremel, Christina M, Groblewski, Peter A

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 282 KB

english, 2006

26

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

Mahoney, Timothy R, Luo, Shuo, Nonet, Michael L

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 242 KB

english, 2006

27

Passive induction of experimental allergic encephalomyelitis

Stromnes, Ingunn M, Goverman, Joan M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 295 KB

english, 2006

28

Active induction of experimental allergic encephalomyelitis

Stromnes, Ingunn M, Goverman, Joan M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 273 KB

english, 2006

29

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 401 KB

english, 2006

30

Silver staining of proteins in polyacrylamide gels

Chevallet, Mireille, Luche, Sylvie, Rabilloud, Thierry

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 287 KB

english, 2006

31

Quantitative gas chromatography mass spectrometric analysis of 2′-deoxyinosine in tissue DNA

Lim, Kok Seong, Jenner, Andrew, Halliwell, Barry

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 311 KB

english, 2006

32

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

Amieva, Hélène, Gaestel, Yann, Dartigues, Jean-François

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 109 KB

english, 2006

33

In vitro generation of germ cells from murine embryonic stem cells

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 339 KB

english, 2006

34

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

Toussaint, Martin, Conconi, Antonio

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 288 KB

english, 2006

35

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

Schwager, Sylva L, Carmona, Adriana K, Sturrock, Edward D

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 142 KB

english, 2006

36

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 225 KB

english, 2006

37

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

Ziegler, Thomas, Schips, Carsten

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 346 KB

english, 2006

38

An ELISA method to measure inhibition of the COX enzymes

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 300 KB

english, 2006

39

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

Zhao, Huimin, Zha, Wenjuan

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 209 KB

english, 2006

40

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 282 KB

english, 2006

41

Patch-clamp recording from mossy fiber terminals in hippocampal slices

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 538 KB

english, 2006

42

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 504 KB

english, 2006

43

Microfluidic culture platform for neuroscience research

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 476 KB

english, 2006

44

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

McDonald, Lucy, Beynon, Robert J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 495 KB

english, 2006

45

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

Bannwarth, Sylvie, Procaccio, Vincent, Paquis-Flucklinger, Veronique

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 380 KB

english, 2006

46

Peterson olefination from α-silyl aldehydes

Pulido, Francisco J, Barbero, Asunción

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 171 KB

english, 2006

47

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

Olafsen, Tove, Kenanova, Vania E, Wu, Anna M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 392 KB

english, 2006

48

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

Dongari-Bagtzoglou, Anna, Kashleva, Helena

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 1.89 MB

english, 2006

49

Whole-genome multiple displacement amplification from single cells

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 182 KB

english, 2006

50

Isolation of murine microglial cells for RNA analysis or flow cytometry

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 264 KB

english, 2006

51

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 276 KB

english, 2006

52

Fluorescent microsphere technique to measure cerebral blood flow in the rat

De Visscher, G, Haseldonckx, M, Flameng, W

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 287 KB

english, 2006

53

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

Hejátko, Jan, Blilou, Ikram, Brewer, Philip B, Friml, Jiří, Scheres, Ben, Benková, Eva

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 249 KB

english, 2006

54

Measuring herpes simplex virus thymidine kinase reporter gene expression in vitro

Yaghoubi, Shahriar S, Gambhir, Sanjiv S

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 215 KB

english, 2006

55

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

Busto, Eduardo, Gotor-Fernández, Vicente, Gotor, Vicente

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 218 KB

english, 2006

56

A protocol for dissecting Drosophila melanogaster brains for live imaging or immunostaining

Wu, Joy S, Luo, Liqun

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 241 KB

english, 2006

57

Split single-cell RT-PCR analysis of Purkinje cells

Esumi, Shigeyuki, Kaneko, Ryosuke, Kawamura, Yoshimi, Yagi, Takeshi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 407 KB

english, 2006

58

Culture of human mast cells from peripheral blood progenitors

Saito, Hirohisa, Kato, Atsushi, Matsumoto, Kenji, Okayama, Yoshimichi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 349 KB

english, 2006

59

Profiling of DNA replication timing in unsynchronized cell populations

Azuara, Véronique

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 198 KB

english, 2006

60

Derivation of mouse embryonic stem cells

Arenas, Ernest, Bryja, Vítězslav, Bonilla, Sonia

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 323 KB

english, 2006

61

Inexpensive low-oxygen incubators

Wright, Woodring E, Shay, Jerry W

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 210 KB

english, 2006

62

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

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 363 KB

english, 2006

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