Volume 1; Issue 3

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Nature Protocols
Volume 1; Issue 3

Nature Protocols

Volume 1; Issue 3

1

Generation of peptide–MHC class I complexes through UV-mediated ligand exchange

Rodenko, Boris, Toebes, Mireille, Hadrup, Sine Reker, van Esch, Wim J E, Molenaar, Annemieke M, Schumacher, Ton N M, Ovaa, Huib

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 929 KB

english, 2006

2

Long-term microfluidic cultures of myotube microarrays for high-throughput focal stimulation

Tourovskaia, Anna, Figueroa-Masot, Xavier, Folch, Albert

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 951 KB

english, 2006

3

Expanded-bed adsorption immobilized-metal affinity chromatography

Tolner, Berend, Smith, Lisa, Begent, Richard H J, Chester, Kerry A

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 273 KB

english, 2006

4

Multiplex-fluorescence in situ hybridization for chromosome karyotyping

Geigl, Jochen B, Uhrig, Sabine, Speicher, Michael R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 300 KB

english, 2006

5

220-plex microRNA expression profile of a single cell

Tang, Fuchou, Hajkova, Petra, Barton, Sheila C, O'Carroll, Dónal, Lee, Caroline, Lao, Kaiqin, Surani, M Azim

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 202 KB

english, 2006

6

Creating self-illuminating quantum dot conjugates

So, Min-Kyung, Loening, Andreas M, Gambhir, Sanjiv S, Rao, Jianghong

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 248 KB

english, 2006

7

Stromal cell–dependent growth of B-1 B cell progenitors in the absence of direct contact

Montecino-Rodriguez, Encarnacion, Dorshkind, Kenneth

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 181 KB

english, 2006

8

Dendritic patch-clamp recording

Davie, Jenny T, Kole, Maarten H P, Letzkus, Johannes J, Rancz, Ede A, Spruston, Nelson, Stuart, Greg J, Häusser, Michael

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 482 KB

english, 2006

9

Transgenesis in fish: efficient selection of transgenic fish by co-injection with a fluorescent reporter construct

Rembold, Martina, Lahiri, Kajori, Foulkes, Nicholas S., Wittbrodt, Joachim

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 520 KB

english, 2006

10

A radioactive uptake assay to measure ion transport across ion channel–containing liposomes

Nimigean, Crina M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 631 KB

english, 2006

11

Using drug-discrimination techniques to study the abuse-related effects of psychoactive drugs in rats

Solinas, Marcello, Panlilio, Leigh V, Justinova, Zuzana, Yasar, Sevil, Goldberg, Steven R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 288 KB

english, 2006

12

Preparation of organotypic hippocampal slice cultures for long-term live imaging

Gogolla, Nadine, Galimberti, Ivan, DePaola, Vincenzo, Caroni, Pico

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 292 KB

english, 2006

13

Long-term live imaging of neuronal circuits in organotypic hippocampal slice cultures

Gogolla, Nadine, Galimberti, Ivan, DePaola, Vincenzo, Caroni, Pico

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 187 KB

english, 2006

14

Assessing nest building in mice

Deacon, Robert MJ

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 221 KB

english, 2006

15

Measuring calcium signaling using genetically targetable fluorescent indicators

Palmer, Amy E, Tsien, Roger Y

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 298 KB

english, 2006

16

Production of chimeras by aggregation of embryonic stem cells with diploid or tetraploid mouse embryos

Eakin, Guy S, Hadjantonakis, Anna-Katerina

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 1.95 MB

english, 2006

17

Genetic transformation of tobacco NT1 cells with Agrobacterium tumefaciens

Mayo, Kristin J, Gonzales, Barbara J, Mason, Hugh S

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 181 KB

english, 2006

18

Determining the role of specific signaling molecules during lymphocyte development in vivo: instant transgenesis

Nakagawa, Rinako, Mason, Susan M, Michie, Alison M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 493 KB

english, 2006

19

Sulforhodamine B colorimetric assay for cytotoxicity screening

Vichai, Vanicha, Kirtikara, Kanyawim

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 141 KB

english, 2006

20

Cerasome as an infusible and cell-friendly gene carrier: synthesis of cerasome-forming lipids and transfection using cerasome

Sasaki, Yoshihiro, Matsui, Kazuki, Aoyama, Yasuhiro, Kikuchi, Jun-ichi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 342 KB

english, 2006

21

Using phiC31 integrase to make transgenic Xenopus laevis embryos

Allen, Bryan G, Weeks, Daniel L

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 325 KB

english, 2006

22

Capping of CdSe–ZnS quantum dots with DHLA and subsequent conjugation with proteins

Clapp, Aaron R., Goldman, Ellen R., Mattoussi, Hedi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 274 KB

english, 2006

23

In vivo single-cell electroporation for transfer of DNA and macromolecules

Bestman, Jennifer E, Ewald, Rebecca C, Chiu, Shu-Ling, Cline, Hollis T

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 385 KB

english, 2006

24

Generation of transgenic birds with replication-deficient lentiviruses

Scott, Benjamin B, Lois, Carlos

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 206 KB

english, 2006

25

A rodent model of myocardial infarction for testing the efficacy of cells and polymers for myocardial reconstruction

Huang, Ngan F, Sievers, Richard E, Park, Jennifer S, Fang, Qizhi, Li, Song, Lee, Randall J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 715 KB

english, 2006

26

Assaying RNA chaperone activity in vivo in bacteria using a ribozyme folding trap

Prenninger, Silvia, Schroeder, Renée, Semrad, Katharina

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 246 KB

english, 2006

27

Non-SELEX: selection of aptamers without intermediate amplification of candidate oligonucleotides

Berezovski, Maxim V, Musheev, Michael U, Drabovich, Andrei P, Jitkova, Julia V, Krylov, Sergey N

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 289 KB

english, 2006

28

Design and implementation of bimolecular fluorescence complementation (BiFC) assays for the visualization of protein interactions in living cells

Kerppola, Tom K

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 270 KB

english, 2006

29

Micropatterned cell cultures on elastic membranes as an in vitro model of myocardium

Camelliti, Patrizia, Gallagher, John O, Kohl, Peter, McCulloch, Andrew D

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 470 KB

english, 2006

30

Object recognition in rats and mice: a one-trial non-matching-to-sample learning task to study 'recognition memory'

Bevins, Rick A, Besheer, Joyce

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 177 KB

english, 2006

31

Production and characterization of adeno-associated viral vectors

Grieger, Joshua C, Choi, Vivian W, Samulski, R Jude

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 548 KB

english, 2006

32

A general user interface for prediction servers of proteins' post-translational modification sites

Zhou, Fengfeng, Xue, Yu, Yao, Xuebiao, Xu, Ying

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 227 KB

english, 2006

33

Immunocytochemistry and quantification of protein colocalization in cultured neurons

Glynn, Marian W, McAllister, A Kimberley

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 560 KB

english, 2006

34

High efficiency germ-line transformation of mosquitoes

Lobo, Neil F, Clayton, John R, Fraser, Malcolm J, Kafatos, Fotis C, Collins, Frank H

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 272 KB

english, 2006

35

The lineaging of fluorescently-labeled Caenorhabditis elegans embryos with StarryNite and AceTree

Murray, John Isaac, Bao, Zhirong, Boyle, Thomas J, Waterston, Robert H

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 811 KB

english, 2006

36

Whole-body imaging with fluorescent proteins

Hoffman, Robert M, Yang, Meng

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 677 KB

english, 2006

37

BrdU assay for neurogenesis in rodents

Wojtowicz, J Martin, Kee, Nohjin

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 269 KB

english, 2006

38

In situ hybridization for mRNA detection in Arabidopsis tissue sections

Brewer, Philip B, Heisler, Marcus G, Hejátko, Jan, Friml, Jiří, Benková, Eva

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 285 KB

english, 2006

39

Preparation of organotypic hippocampal slice cultures: interface method

De Simoni, Anna, MY Yu, Lily

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 280 KB

english, 2006

40

Design, construction and in vitro testing of zinc finger nucleases

Carroll, Dana, Morton, J Jason, Beumer, Kelly J, Segal, David J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 508 KB

english, 2006

41

Quantification of starch in plant tissues

Smith, Alison M, Zeeman, Samuel C

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 123 KB

english, 2006

42

Negative detection of biomolecules separated in polyacrylamide electrophoresis gels

Castellanos-Serra, Lila, Hardy, Eugenio

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 219 KB

english, 2006

43

Two-dimensional difference gel electrophoresis

Viswanathan, Surya, Ünlü, Mustafa, Minden, Jonathan S

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 293 KB

english, 2006

44

Quantification of mRNA using real-time RT-PCR

Nolan, Tania, Hands, Rebecca E, Bustin, Stephen A

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 972 KB

english, 2006

45

Serial analysis of binding elements for human transcription factors

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 259 KB

english, 2006

46

Analysis of apoptosis by propidium iodide staining and flow cytometry

Riccardi, Carlo, Nicoletti, Ildo

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 165 KB

english, 2006

47

Carbon fiber technique for the investigation of single-cell mechanics in intact cardiac myocytes

Sugiura, Seiryo, Nishimura, Satoshi, Yasuda, Soichiro, Hosoya, Yumiko, Katoh, Kaoru

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 196 KB

english, 2006

48

Using tRNA-linked molecular beacons to image cytoplasmic mRNAs in live cells

Mhlanga, Musa M, Tyagi, Sanjay

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 182 KB

english, 2006

49

Evolving proteins in mammalian cells using somatic hypermutation

Wang, Lei, Tsien, Roger Y

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 164 KB

english, 2006

50

RNAi screens in Caenorhabditis elegans in a 96-well liquid format and their application to the systematic identification of genetic interactions

Lehner, Ben, Tischler, Julia, Fraser, Andrew G

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 163 KB

english, 2006

51

Protein profiling by the combination of two independent mass spectrometry techniques

Chen, Wei-Qiang, Kang, Sung-Ung, Lubec, Gert

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 464 KB

english, 2006

52

Developing multiplexed SNP assays with special reference to degraded DNA templates

Sanchez, Juan J, Endicott, Phillip

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 308 KB

english, 2006

53

An ex vivo method for rapid generation of monoclonal antibodies (ADLib system)

Seo, Hidetaka, Hashimoto, Shu-ichi, Tsuchiya, Kyoko, Lin, Waka, Shibata, Takehiko, Ohta, Kunihiro

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 183 KB

english, 2006

54

Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution

Wilkinson, Kevin A, Merino, Edward J, Weeks, Kevin M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 235 KB

english, 2006

55

Quality assurance for polychromatic flow cytometry

Perfetto, Stephen P, Ambrozak, David, Nguyen, Richard, Chattopadhyay, Pratip, Roederer, Mario

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 286 KB

english, 2006

56

Microcontact printing of axon guidance molecules for generation of graded patterns

von Philipsborn, Anne C, Lang, Susanne, Bernard, André, Loeschinger, Jürgen, David, Christian, Lehnert, Dirk, Bastmeyer, Martin, Bonhoeffer, Friedrich

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 317 KB

english, 2006

57

Diolistic labeling of neuronal cultures and intact tissue using a hand-held gene gun

O'Brien, John A, Lummis, Sarah C R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 419 KB

english, 2006

58

Tissue-specific and cell type–specific RNA interference in vivo

Wilkinson, Miles F, Rao, Manjeet K

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 279 KB

english, 2006

59

Methods for MAG3 conjugation and 99mTc radiolabeling of biomolecules

Wang, Yi, Liu, Guozheng, Hnatowich, Donald J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 149 KB

english, 2006

60

Intracellular cytokine optimization and standard operating procedure

Lamoreaux, Laurie, Roederer, Mario, Koup, Richard

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 417 KB

english, 2006

61

Analysis of translation initiation using a translation control reporter system

Wiesenthal, Volker, Leutz, Achim, Calkhoven, Cornelis F

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 335 KB

english, 2006

62

In vivo electroporation in the embryonic mouse central nervous system

Saito, Tetsuichiro

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 501 KB

english, 2006

63

Quantification of cerebral amyloid angiopathy and parenchymal amyloid plaques with Congo red histochemical stain

Wilcock, Donna M, Gordon, Marcia N, Morgan, Dave

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 255 KB

english, 2006

64

Two-step metal affinity purification of double-tagged (NusA–His6) fusion proteins

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 245 KB

english, 2006

65

Selection and characterization of large collections of peptide aptamers through optimized yeast two-hybrid procedures

Bickle, Marc B T, Dusserre, Eric, Moncorgé, Olivier, Bottin, Hélène, Colas, Pierre

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 659 KB

english, 2006

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