Determination of gene expression patterns using high-throughput RNA in situ hybridization to whole-mount Drosophila embryos - pp605 - 618

Richard Weiszmann, Ann S Hammonds & Susan E Celniker

Published online: 09 April 2009 | doi:10.1038/nprot.2009.55

Abstract - Determination of gene expression patterns using high-throughput RNA : in situ: hybridization to whole-mount : Drosophila: embryos | Full Text - Determination of gene expression patterns using high-throughput RNA in situ hybridization to whole-mount Drosophila embryos | PDF (457 KB) - Determination of gene expression patterns using high-throughput RNA in situ hybridization to whole-mount Drosophila embryos

Subject Categories: Cell and developmental biology | Genetic analysis | Immunological techniques | Model organisms

A general protocol for the crystallization of membrane proteins for X-ray structural investigation - pp619 - 637

Zachary E R Newby, Joseph D O'Connell III, Franz Gruswitz, Franklin A Hays, William E C Harries, Ian M Harwood, Joseph D Ho, John K Lee, David F Savage, Larry J W Miercke & Robert M Stroud

Published online: 09 April 2009 | doi:10.1038/nprot.2009.27

Abstract - A general protocol for the crystallization of membrane proteins for X-ray structural investigation | Full Text - A general protocol for the crystallization of membrane proteins for X-ray structural investigation | PDF (701 KB) - A general protocol for the crystallization of membrane proteins for X-ray structural investigation | Supplementary information

Subject Categories: Isolation, purification and separation | Recombinant technology | Structural analysis

See also: Protocol by Caffrey & Cherezov

A protocol for Agrobacterium-mediated transformation of Brachypodium distachyon community standard line Bd21 - pp638 - 649

Sílvia C Alves, Barbara Worland, Vera Thole, John W Snape, Michael W Bevan & Philippe Vain

Published online: 09 April 2009 | doi:10.1038/nprot.2009.30

Abstract - A protocol for : Agrobacterium: -mediated transformation of : Brachypodium distachyon: community standard line Bd21 | Full Text - A protocol for Agrobacterium-mediated transformation of Brachypodium distachyon community standard line Bd21 | PDF (622 KB) - A protocol for Agrobacterium-mediated transformation of Brachypodium distachyon community standard line Bd21

Subject Categories: Model organisms | Plant biology

See also: Protocol by Thole et al.

A protocol for efficiently retrieving and characterizing flanking sequence tags (FSTs) in Brachypodium distachyon T-DNA insertional mutants - pp650 - 661

Vera Thole, Sílvia C Alves, Barbara Worland, Michael W Bevan & Philippe Vain

Published online: 09 April 2009 | doi:10.1038/nprot.2009.32

Abstract - A protocol for efficiently retrieving and characterizing flanking sequence tags (FSTs) in : Brachypodium distachyon: T-DNA insertional mutants | Full Text - A protocol for efficiently retrieving and characterizing flanking sequence tags (FSTs) in Brachypodium distachyon T-DNA insertional mutants | PDF (724 KB) - A protocol for efficiently retrieving and characterizing flanking sequence tags (FSTs) in Brachypodium distachyon T-DNA insertional mutants

Subject Categories: Genetic analysis | Nucleic acid based molecular biology | Plant biology

See also: Protocol by Alves et al.

A protocol for the culture and differentiation of highly polarized human retinal pigment epithelial cells - pp662 - 673

Shozo Sonoda, Christine Spee, Ernesto Barron, Stephen J Ryan, Ram Kannan & David R Hinton

Published online: 16 April 2009 | doi:10.1038/nprot.2009.33

Abstract - A protocol for the culture and differentiation of highly polarized human retinal pigment epithelial cells | Full Text - A protocol for the culture and differentiation of highly polarized human retinal pigment epithelial cells | PDF (1,132 KB) - A protocol for the culture and differentiation of highly polarized human retinal pigment epithelial cells

Subject Categories: Cell and tissue culture | Detection and probing | Isolation, purification and separation

Optimization of immunoprecipitation–western blot analysis in detecting GW182-associated components of GW/P bodies - pp674 - 685

Joanna J Moser, Edward K L Chan & Marvin J Fritzler

Published online: 16 April 2009 | doi:10.1038/nprot.2009.34

Abstract - Optimization of immunoprecipitation-western blot analysis in detecting GW182-associated components of GW/P bodies | Full Text - Optimization of immunoprecipitation–western blot analysis in detecting GW182-associated components of GW/P bodies | PDF (392 KB) - Optimization of immunoprecipitation–western blot analysis in detecting GW182-associated components of GW/P bodies

Subject Categories: Cell and tissue culture | Detection and probing | Isolation, purification and separation

Monitoring detergent-mediated solubilization and reconstitution of lipid membranes by isothermal titration calorimetry - pp686 - 697

Heiko Heerklotz, Alekos D Tsamaloukas & Sandro Keller

Published online: 16 April 2009 | doi:10.1038/nprot.2009.35

Abstract - Monitoring detergent-mediated solubilization and reconstitution of lipid membranes by isothermal titration calorimetry | Full Text - Monitoring detergent-mediated solubilization and reconstitution of lipid membranes by isothermal titration calorimetry | PDF (396 KB) - Monitoring detergent-mediated solubilization and reconstitution of lipid membranes by isothermal titration calorimetry

Subject Categories: Biochemistry and protein analysis | Spectroscopy and structural analysis

A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics - pp698 - 705

Jürgen Cox, Ivan Matic, Maximiliane Hilger, Nagarjuna Nagaraj, Matthias Selbach, Jesper V Olsen & Matthias Mann

Published online: 16 April 2009 | doi:10.1038/nprot.2009.36

Abstract - A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics | Full Text - A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics | PDF (467 KB) - A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics

Subject Categories: Biochemistry and protein analysis | Computational and theoretical biology | Genomics and proteomics | Spectroscopy and structural analysis

Crystallizing membrane proteins using lipidic mesophases - pp706 - 731

Martin Caffrey & Vadim Cherezov

Published online: 23 April 2009 | doi:10.1038/nprot.2009.31

Abstract - Crystallizing membrane proteins using lipidic mesophases | Full Text - Crystallizing membrane proteins using lipidic mesophases | PDF (1,930 KB) - Crystallizing membrane proteins using lipidic mesophases

Subject Categories: Biochemistry and protein analysis | Spectroscopy and structural analysis

See also: Protocol by Newby et al.

Phylogenetic classification and identification of bacteria by mass spectrometry - pp732 - 742

Anja Freiwald & Sascha Sauer

Published online: 23 April 2009 | doi:10.1038/nprot.2009.37

Abstract - Phylogenetic classification and identification of bacteria by mass spectrometry | Full Text - Phylogenetic classification and identification of bacteria by mass spectrometry | PDF (380 KB) - Phylogenetic classification and identification of bacteria by mass spectrometry

Subject Categories: Isolation, purification and separation | Microbiology and virology | Model organisms | Spectroscopy and structural analysis

Marker selection for genetic case–control association studies - pp743 - 752

Fredrik H Pettersson, Carl A Anderson, Geraldine M Clarke, Jeffrey C Barrett, Lon R Cardon, Andrew P Morris & Krina T Zondervan

Published online: 23 April 2009 | doi:10.1038/nprot.2009.38

Abstract - Marker selection for genetic case-control association studies | Full Text - Marker selection for genetic case–control association studies | PDF (603 KB) - Marker selection for genetic case–control association studies | Supplementary information

Subject Category: Genetic analysis

Analysis of iron–sulfur protein maturation in eukaryotes - pp753 - 766

Antonio J Pierik, Daili J A Netz & Roland Lill

Published online: 30 April 2009 | doi:10.1038/nprot.2009.39

Abstract - Analysis of iron-sulfur protein maturation in eukaryotes | Full Text - Analysis of iron–sulfur protein maturation in eukaryotes | PDF (478 KB) - Analysis of iron–sulfur protein maturation in eukaryotes

Subject Categories: Cell and tissue culture | Detection and probing | Isolation, purification and separation | Molecular interactions | Functional analysis

Screening individual hybridomas by microengraving to discover monoclonal antibodies - pp767 - 782

Adebola O Ogunniyi, Craig M Story, Eliseo Papa, Eduardo Guillen & J Christopher Love

Published online: 30 April 2009 | doi:10.1038/nprot.2009.40

Abstract - Screening individual hybridomas by microengraving to discover monoclonal antibodies | Full Text - Screening individual hybridomas by microengraving to discover monoclonal antibodies | PDF (731 KB) - Screening individual hybridomas by microengraving to discover monoclonal antibodies

Subject Categories: Biochemistry and protein analysis | Immunological techniques | Isolation, purification and separation

A method for growing a biofilm under low shear at the air–liquid interface using the drip flow biofilm reactor - pp783 - 788

Darla M Goeres, Martin A Hamilton, Nicholas A Beck, Kelli Buckingham-Meyer, Jackie D Hilyard, Linda R Loetterle, Lindsey A Lorenz, Diane K Walker & Philip S Stewart

Published online: 30 April 2009 | doi:10.1038/nprot.2009.59

Abstract - A method for growing a biofilm under low shear at the air-liquid interface using the drip flow biofilm reactor | Full Text - A method for growing a biofilm under low shear at the air–liquid interface using the drip flow biofilm reactor | PDF (346 KB) - A method for growing a biofilm under low shear at the air–liquid interface using the drip flow biofilm reactor | Supplementary information

Subject Categories: Cell and tissue culture | Microbiology and virology | Model organisms

A high-throughput splinkerette-PCR method for the isolation and sequencing of retroviral insertion sites - pp789 - 798

Anthony G Uren, Harald Mikkers, Jaap Kool, Louise van der Weyden, Anders H Lund, Catherine H Wilson, Richard Rance, Jos Jonkers, Maarten van Lohuizen, Anton Berns & David J Adams

Published online: 30 April 2009 | doi:10.1038/nprot.2009.64

Abstract - A high-throughput splinkerette-PCR method for the isolation and sequencing of retroviral insertion sites | Full Text - A high-throughput splinkerette-PCR method for the isolation and sequencing of retroviral insertion sites | PDF (329 KB) - A high-throughput splinkerette-PCR method for the isolation and sequencing of retroviral insertion sites | Supplementary information

Subject Categories: Genetic analysis | Nucleic acid based molecular biology