Volume 1; Issue 2

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Nature Protocols
Volume 1; Issue 2

Nature Protocols

Volume 1; Issue 2

1

Two-photon targeted patching (TPTP) in vivo

Komai, Shoji, Denk, Winfried, Osten, Pavel, Brecht, Michael, Margrie, Troy W

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 341 KB

english, 2006

2

Isotope labeling strategies for the study of high-molecular-weight proteins by solution NMR spectroscopy

Tugarinov, Vitali, Kanelis, Voula, Kay, Lewis E

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 481 KB

english, 2006

3

Sample extraction techniques for enhanced proteomic analysis of plant tissues

Isaacson, Tal, Damasceno, Cynthia M B, Saravanan, Ramu S, He, Yonghua, Catalá, Carmen, Saladié, Montserrat, Rose, Jocelyn K C

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 171 KB

english, 2006

4

PCR-based accurate synthesis of long DNA sequences

Xiong, Ai-Sheng, Yao, Quan-Hong, Peng, Ri-He, Duan, Hui, Li, Xian, Fan, Hui-Qin, Cheng, Zong-Ming, Li, Yi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 260 KB

english, 2006

5

State-of-the-art two-dimensional gel electrophoresis: a key tool of proteomics research

Carrette, Odile, Burkhard, Pierre R, Sanchez, Jean-Charles, Hochstrasser, Denis F

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 1.69 MB

english, 2006

6

De novo production of antigen-specific suppressor cells in vivo

Kretschmer, Karsten, Heng, Tracy S P, von Boehmer, Harald

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 429 KB

english, 2006

7

Reverse engineering cellular networks

Margolin, Adam A, Wang, Kai, Lim, Wei Keat, Kustagi, Manjunath, Nemenman, Ilya, Califano, Andrea

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 562 KB

english, 2006

8

The JAM Test and its daughter P-JAM: simple tests of DNA fragmentation to measure cell death and stasis

Usharauli, David, Perez-Diez, Ainhoa, Matzinger, Polly

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 378 KB

english, 2006

9

NMR: prediction of protein flexibility

Berjanskii, Mark, Wishart, David S

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 207 KB

english, 2006

10

Subcellular imaging in the live mouse

Hoffman, Robert M, Yang, Meng

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 592 KB

english, 2006

11

A rat model for neural circuitry abnormalities in schizophrenia

Berretta, Sabina, Benes, Francine M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 319 KB

english, 2006

12

Identification and detection of RNA-RNA interactions using the yeast RNA hybrid system

Piganeau, Nicolas, Schroeder, Renée

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 229 KB

english, 2006

13

Labeling of aliphatic carboxylic acids using [11C]carbon monoxide

Itsenko, Oleksiy, Kihlberg, Tor, Långström, Bengt

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 168 KB

english, 2006

14

Flow cytometry after bromodeoxyuridine labeling to measure S and G2+M phase durations plus doubling times in vitro and in vivo

Terry, Nicholas HA, White, R Allen

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 362 KB

english, 2006

15

Profluorescent protein fragments for fast bimolecular fluorescence complementation in vitro

Demidov, Vadim V, Broude, Natalia E

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 204 KB

english, 2006

16

Clinical and empirical applications of the Rey–Osterrieth Complex Figure Test

Shin, Min-Sup, Park, Sun-Young, Park, Se-Ran, Seol, Soon-Ho, Kwon, Jun Soo

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 237 KB

english, 2006

17

Morris water maze: procedures for assessing spatial and related forms of learning and memory

Vorhees, Charles V, Williams, Michael T

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 222 KB

english, 2006

18

Generation of cells expressing improved doxycycline-regulated reverse transcriptional transactivator rtTA2S-M2

Welman, Arkadiusz, Barraclough, Jane, Dive, Caroline

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 265 KB

english, 2006

19

Construction of marker-free transplastomic tobacco using the Cre-loxP site-specific recombination system

Lutz, Kerry Ann, Svab, Zora, Maliga, Pal

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 326 KB

english, 2006

20

Color-coded fluorescence imaging of tumor-host interactions

Hoffman, Robert M, Yang, Meng

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 484 KB

english, 2006

21

Housing, husbandry and handling of rodents for behavioral experiments

Deacon, Robert M J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 402 KB

english, 2006

22

Visualization of F-actin and G-actin equilibrium using fluorescence resonance energy transfer (FRET) in cultured cells and neurons in slices

Okamoto, Ken-Ichi, Hayashi, Yasunori

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 338 KB

english, 2006

23

Alignment and calibration of a focal neurotransmitter uncaging system

Sarkisov, Dmitry V, Wang, Samuel S-H

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 231 KB

english, 2006

24

Isolation and purification of afferent lymph dendritic cells that drain the skin of cattle

Hope, Jayne C, Howard, Chris J, Prentice, Helen, Charleston, Bryan

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 292 KB

english, 2006

25

Production of recombinant protein in Pichia pastoris by fermentation

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 333 KB

english, 2006

26

Automated serum peptide profiling

Villanueva, Josep, Lawlor, Kevin, Toledo-Crow, Ricardo, Tempst, Paul

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 861 KB

english, 2006

27

Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes

Pratt, Julie M, Simpson, Deborah M, Doherty, Mary K, Rivers, Jenny, Gaskell, Simon J, Beynon, Robert J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 684 KB

english, 2006

28

Preparation and use of Coppersensor-1, a synthetic fluorophore for live-cell copper imaging

Miller, Evan W, Zeng, Li, Domaille, Dylan W, Chang, Christopher J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 212 KB

english, 2006

29

Dendrimer-like DNA-based fluorescence nanobarcodes

Um, Soong Ho, Lee, Jong Bum, Kwon, Sang Yeon, Li, Yougen, Luo, Dan

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 277 KB

english, 2006

30

Isolation of DNA from bacterial samples of the human gastrointestinal tract

Zoetendal, Erwin G, Heilig, Hans GHJ, Klaassens, Eline S, Booijink, Carien CGM, Kleerebezem, Michiel, Smidt, Hauke, de Vos, Willem M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 135 KB

english, 2006

31

Isolation of RNA from bacterial samples of the human gastrointestinal tract

Zoetendal, Erwin G, Booijink, Carien CGM, Klaassens, Eline S, Heilig, Hans GHJ, Kleerebezem, Michiel, Smidt, Hauke, de Vos, Willem M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 165 KB

english, 2006

32

A guinea pig model of acute and chronic asthma using permanently instrumented and unrestrained animals

Meurs, Herman, Santing, Ruud E, Remie, René, van der Mark, Thomas W, Westerhof, Fiona J, Zuidhof, Annet B, Bos, I Sophie T, Zaagsma, Johan

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 322 KB

english, 2006

33

Biolistic transfection of neuronal cultures using a hand-held gene gun

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

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 356 KB

english, 2006

34

An ultrastructural readout of fluorescence recovery after photobleaching using correlative light and electron microscopy

Darcy, Kevin J, Staras, Kevin, Collinson, Lucy M, Goda, Yukiko

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 452 KB

english, 2006

35

Cervical duct cannulation in sheep for collection of afferent lymph dendritic cells from head tissues

Schwartz-Cornil, Isabelle, Epardaud, Mathieu, Bonneau, Michel

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 215 KB

english, 2006

36

A double-reporter splicing assay for determining splicing efficiency in mammalian cells

Nasim, Md. Talat, Eperon, Ian C

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 188 KB

english, 2006

37

Assay of protein kinases using radiolabeled ATP: a protocol

Hastie, C James, McLauchlan, Hilary J, Cohen, Philip

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 118 KB

english, 2006

38

Studying the uptake of cell-penetrating peptides

Holm, Tina, Johansson, Henrik, Lundberg, Pontus, Pooga, Margus, Lindgren, Maria, Langel, Ülo

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 202 KB

english, 2006

39

Conjugation of DOTA-like chelating agents to peptides and radiolabeling with trivalent metallic isotopes

Sosabowski, Jane K, Mather, Stephen J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 145 KB

english, 2006

40

Differentiation of mouse embryonic stem cells to insulin-producing cells

Schroeder, Insa S, Rolletschek, Alexandra, Blyszczuk, Przemyslaw, Kania, Gabriela, Wobus, Anna M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 608 KB

english, 2006

41

Rational design and in vitro and in vivo delivery of Dicer substrate siRNA

Amarzguioui, Mohammed, Lundberg, Patric, Cantin, Edouard, Hagstrom, James, Behlke, Mark A, Rossi, John J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 398 KB

english, 2006

42

Southern blotting

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 360 KB

english, 2006

43

Localized transfection with magnetic beads coated with PCR products and other nucleic acids

Santori, Maria Isabel, Gonzalez, Cayetano, Serrano, Luis, Isalan, Mark

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 342 KB

english, 2006

44

Blind patch clamp recordings in embryonic and adult mammalian brain slices

Castañeda-Castellanos, David R, Flint, Alexander C, Kriegstein, Arnold R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 567 KB

english, 2006

45

A lectin microarray approach for the rapid analysis of bacterial glycans

Hsu, Ku-Lung, Mahal, Lara K

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 179 KB

english, 2006

46

A detergent-based assay for the detection of promiscuous inhibitors

Feng, Brian Y, Shoichet, Brian K

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 146 KB

english, 2006

47

An autonomous fueled machine that replicates catalytic nucleic acid templates for the amplified optical analysis of DNA

Weizmann, Yossi, Cheglakov, Zoya, Pavlov, Valeri, Willner, Itamar

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 291 KB

english, 2006

48

Analysis of locomotor activity rhythms in Drosophila

Rosato, Ezio, Kyriacou, Charalambos P

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 476 KB

english, 2006

49

A microarray-based protocol for monitoring the growth of yeast overexpression strains

Butcher, Rebecca A, Schreiber, Stuart L

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 364 KB

english, 2006

50

A protocol for PAIR: PNA-assisted identification of RNA binding proteins in living cells

Zeng, Fanyi, Peritz, Tiina, Kannanayakal, Theresa J, Kilk, Kalle, Eiríksdóttir, Emelía, Langel, Ulo, Eberwine, James

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 235 KB

english, 2006

51

Immunoprecipitation of mRNA-protein complexes

Peritz, Tiina, Zeng, Fanyi, Kannanayakal, Theresa J, Kilk, Kalle, Eiríksdóttir, Emelía, Langel, Ulo, Eberwine, James

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 129 KB

english, 2006

52

The single-step method of RNA isolation by acid guanidinium thiocyanate–phenol–chloroform extraction: twenty-something years on

Chomczynski, Piotr, Sacchi, Nicoletta

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 123 KB

english, 2006

53

Multiplex amplification of ancient DNA

Dear, Paul H, Krause, Johannes, Meyer, Matthias, Rohland, Nadin, Schöneberg, Torsten, Spriggs, Helen, Stiller, Mathias, Hofreiter, Michael, Römpler, Holger

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 353 KB

english, 2006

54

Laser-capture microdissection

Espina, Virginia, Wulfkuhle, Julia D, Calvert, Valerie S, VanMeter, Amy, Zhou, Weidong, Coukos, George, Geho, David H, Petricoin, Emanuel F, Liotta, Lance A

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 519 KB

english, 2006

55

High Ca2+-phosphate transfection efficiency in low-density neuronal cultures

Jiang, Min, Chen, Gong

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 457 KB

english, 2006

56

Tagging recombinant proteins with a Sel-tag for purification, labeling with electrophilic compounds or radiolabeling with 11C

Cheng, Qing, Stone-Elander, Sharon, Arnér, Elias S J

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 342 KB

english, 2006

57

Selection by flow-sorting of genetically transformed, GFP-expressing blood stages of the rodent malaria parasite, Plasmodium berghei

Janse, Chris J, Franke-Fayard, Blandine, Waters, Andrew P

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 342 KB

english, 2006

58

Chromophore-assisted light inactivation (CALI) using the phototoxic fluorescent protein KillerRed

Bulina, Maria E, Lukyanov, Konstantin A, Britanova, Olga V, Onichtchouk, Daria, Lukyanov, Sergey, Chudakov, Dmitriy M

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 274 KB

english, 2006

59

High-throughput plasmid cDNA library screening

Wan, Kenneth H, Yu, Charles, George, Reed A, Carlson, Joseph W, Hoskins, Roger A, Svirskas, Robert, Stapleton, Mark, Celniker, Susan E

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 289 KB

english, 2006

60

Cross-species chromosome painting

Rens, Willem, Fu, Beiyuan, O'Brien, Patricia C M, Ferguson-Smith, Malcolm

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 179 KB

english, 2006

61

Enhanced delivery of cell-penetrating peptide–peptide nucleic acid conjugates by endosomal disruption

Shiraishi, Takehiko, Nielsen, Peter E

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 141 KB

english, 2006

62

Construction of diverse adeno-associated viral libraries for directed evolution of enhanced gene delivery vehicles

Maheshri, Narendra, Kaspar, Brian K, Schaffer, David V, Koerber, James T

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 183 KB

english, 2006

63

Isolating and engineering human antibodies using yeast surface display

Chao, Ginger, Lau, Wai L, Hackel, Benjamin J, Sazinsky, Stephen L, Lippow, Shaun M, Wittrup, K Dane

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 464 KB

english, 2006

64

Isolation of specific RNA-binding proteins using the streptomycin-binding RNA aptamer

Windbichler, Nikolai, Schroeder, Renée

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 184 KB

english, 2006

65

Cell tracking using a photoconvertible fluorescent protein

Hatta, Kohei, Tsujii, Hitomi, Omura, Tomomi

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 452 KB

english, 2006

66

Chromatin immunoprecipitation and microarray-based analysis of protein location

Lee, Tong Ihn, Johnstone, Sarah E, Young, Richard A

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 636 KB

english, 2006

67

Preparation of N-succinimidyl 3-[*I]iodobenzoate: an agent for the indirect radioiodination of proteins

Vaidyanathan, Ganesan, Zalutsky, Michael R

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 219 KB

english, 2006

68

Agrobacterium-mediated transformation of Arabidopsis thaliana using the floral dip method

Zhang, Xiuren, Henriques, Rossana, Lin, Shih-Shun, Niu, Qi-Wen, Chua, Nam-Hai

Journal:

Nature Protocols

Year:

2006

Language:

english

File:

PDF, 237 KB

english, 2006