CSH Protocols, Table of Contents
Primary Archive, Section 5

May 2006

Protocols

Measuring Protein Concentration by Western Analysis Using Enhanced Chemiluminescence Detection
Joint ProteomicS Laboratory (JPSL) of the Ludwig Institute for Cancer Research and Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
CSH Protocols; 2006; doi:10.1101/pdb.prot4255
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Using Trichloroacetic Acid to Concentrate Proteins and Remove Interfering Substances
Joint ProteomicS Laboratory (JPSL) of the Ludwig Institute for Cancer Research and Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
CSH Protocols; 2006; doi:10.1101/pdb.prot4257
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Using Deoxycholate and Trichloroacetic Acid to Concentrate Proteins and Remove Interfering Substances
Joint ProteomicS Laboratory (JPSL) of the Ludwig Institute for Cancer Research and the Walter and Eliza Hall Institute of Medical Research
CSH Protocols; 2006; doi:10.1101/pdb.prot4258
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Using Acetone and Trichloroacetic Acid to Concentrate Proteins and Remove Interfering Substances
Joint ProteomicS Laboratory (JPSL) of the Ludwig Institute for Cancer Research and Walter and Eliza Institute of Medical Research, Melbourne, Australia
CSH Protocols; 2006; doi:10.1101/pdb.prot4259
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Using Phenol and Ether to Concentrate Proteins and Remove Interfering Substances
Joint ProteomicS Laboratory (JPSL) of the Ludwig Institute for Cancer Research and Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
CSH Protocols; 2006; doi:10.1101/pdb.prot4260
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Optimization of Imidazole Concentrations for Immobilized Metal-Ion Affinity Chromatography
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4261
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Protein Purification Using Immobilized Metal-Ion Affinity Chromatography under Optimized Imidazole Concentrations
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4262
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Optimization of an Imidazole Gradient for Purification of Histidine-Tagged Proteins
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4263
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Purification of Histidine-Tagged Proteins Using Stepwise Elution with Imidazole
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4264
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Preparation of Denatured Protein Samples from Inclusion Bodies
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4265
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Preparation of Denatured Protein Samples from Cell Paste or Cell Extract
Lars Haneskog
CSH Protocols; 2006; doi:10.1101/pdb.prot4266
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Packing Ceramic Hydroxyapatite Columns for High-Performance Liquid Chromatography
Richard J. Simpson
CSH Protocols; 2006; doi:10.1101/pdb.prot4267
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Protein Separation on Ceramic Hydroxyapatite Using High-Performance Liquid Chromatography
Richard J. Simpson
CSH Protocols; 2006; doi:10.1101/pdb.prot4268
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Introduction of Double-Stranded RNA in C. elegans by Injection
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4315
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Introduction of Double-Stranded RNA in C. elegans by Soaking
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4316
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Introduction of Double-Stranded RNA in C. elegans by Feeding
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4317
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Cosuppression in C. elegans
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4318
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Detection of siRNA in C. elegans Using RNase Protection
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4319
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Detection of si/miRNA in C. elegans by Northern Blot
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4320
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Isolation of RNA from C. elegans
René F. Ketting, Marcel Tijsterman, and Ronald H.A. Plasterk
CSH Protocols; 2006; doi:10.1101/pdb.prot4321
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An Assay for RNA-Dependent RNA Polymerase Activity
Luyun Huang, John Gledhill, and Craig E. Cameron
CSH Protocols; 2006; doi:10.1101/pdb.prot4322
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Assay for Primed RNA-Dependent RNA Polymerase Transcription
Luyun Huang, John Gledhill, and Craig E. Cameron
CSH Protocols; 2006; doi:10.1101/pdb.prot4323
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Preparation and Fractionation of Drosophila Embryo Extracts for the In Vitro Characterization of RNAi
Luyun Huang, John Gledhill, and Craig E. Cameron
CSH Protocols; 2006; doi:10.1101/pdb.prot4324
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Preparation of siRNAs from Drosophila Embryo Extracts
Luyun Huang, John Gledhill, and Craig E. Cameron
CSH Protocols; 2006; doi:10.1101/pdb.prot4325
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Protocol for siRNA-Primed RNA Synthesis
Luyun Huang, John Gledhill, and Craig E. Cameron
CSH Protocols; 2006; doi:10.1101/pdb.prot4326
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Delivery of dsRNA into Plants by VIGS Methodology
Tessa M. Burch-Smith, Jennifer L. Miller, and Savithramma P. Dinesh-Kumar
CSH Protocols; 2006; doi:10.1101/pdb.prot4327
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Preparing Frozen Tissue Sections for Immunostaining
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4328
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Preparing Paraffin Tissue Sections for Immunostaining
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4329
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Preparing Cell Smears from Tissue Samples for Immunostaining
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4330
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Binding Antibodies to Tissue Sections
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4331
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Detection of Horseradish Peroxidase-Labeled Reagents with Diaminobenzidine/Metal
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4332
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Detection of Horseradish Peroxidase-Labeled Reagents with Chloronaphthol
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4333
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Detection of Horseradish Peroxidase-Labeled Reagents with Aminoethylcarbazole
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4334
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Detection of Alkaline Phosphatase-Labeled Reagents
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4335
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Detection of ß-Galactosidase-Labeled Reagents
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4336
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Detection of Gold-Labeled Reagents
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4337
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Counterstains
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4338
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Selection of siRNA Sequences for Mammalian RNAi
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4339
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Annealing siRNAs to Produce siRNA Duplexes
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4340
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Mammalian Cell Culture and Preparation of Cells for RNAi in 24-Well Plates
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4341
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Cotransfection of Luciferase Reporter Plasmids with siRNA Duplexes
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4342
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Transfection of Mammalian Cells with siRNA Duplexes
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4343
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Immunofluorescence Detection of RNAi-Induced Protein Knockdown in Mammalian Cells
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4344
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Detection of RNAi-Induced Protein Knockdown in Mammalian Cells by Western Blotting
Thomas Tuschl
CSH Protocols; 2006; doi:10.1101/pdb.prot4345
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Serum Testing for Mammalian Cell Culture
Gretchen J. Darlington
CSH Protocols; 2006; doi:10.1101/pdb.prot4348
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Trypsinization of Cells Grown in Monolayer
Gretchen J. Darlington
CSH Protocols; 2006; doi:10.1101/pdb.prot4349
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Cryopreservation of Mammalian Culture Cells: Preparation and Recovery of Samples
Gretchen J. Darlington
CSH Protocols; 2006; doi:10.1101/pdb.prot4350
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Detection of Mycoplasma in Mammalian Cell Cultures Using Fluorescence Microscopy
Gretchen J. Darlington
CSH Protocols; 2006; doi:10.1101/pdb.prot4351
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Intraperitoneal (IP) Injection
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4352
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Setting Up Microdrop Cultures
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4353
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Making Pipettes From Hard Glass Capillaries
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4354
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Preparing Siliconized Pipettes
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4355
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Opening the Abdominal Cavity and Locating Female Reproductive Organs
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4356
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Quick and Humane Sacrifice of a Mouse by Cervical Dislocation
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4357
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Collecting Zygotes and Removing Cumulus Cells With Hyaluronidase
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4358
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Collecting Two-Cell- to Compacted Morula-Stage Embryos
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4359
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Collecting Blastocysts
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4360
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Isolating Postimplantation Embryos: Prestreak-Stage
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4362
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Isolating Postimplantation Embryos: Early Primitive-Streak-Stage
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4363
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Isolating Postimplantation Embryos: Late Primitive-Streak-Stage
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4364
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Isolating Postimplantation Embryos: Early Neural-Fold-Stage
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4365
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Isolating Postimplantation Embryos: Early Somite-Stage
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4366
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Isolating Extraembryonic Membranes
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4367
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Separating Postimplantation Germ Layers
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4368
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Germ Layer Explant Recombination Culture
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4369
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Isolating Germ Cells from the Genital Ridge
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4370
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Roller Culture of Postimplantation Embryos
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4371
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Preparation of Rat Serum
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4372
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Static Culture of Postimplantation Embryos
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4373
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Electroporation
Andras Nagy, Marina Gertsenstein, Kristina Vintersten, and Richard Behringer
CSH Protocols; 2006; doi:10.1101/pdb.prot4375
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Analysis of DNA Fragmentation Using Agarose Gel Electrophoresis
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4429
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Analysis of DNA Fragmentation Using Propidium Iodide (PI) Fluorescence of Individual Nuclei
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4430
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Analysis of DNA Fragmentation Using Propidium Iodide (PI) Staining After Ethanol Fixation
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4431
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Analysis of DNA Fragmentation Using the JAM Assay
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4432
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TUNEL Staining of Adherent Cells to Detect Apoptosis
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4433
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Biochemical Analysis of Cell Death Using Colorimetric Quantification of Caspase Activation
Shailaja Kasibhatla, Gustavo P. Amarante-Mendes, Deborah Finucane, Thomas Brunner, Ella Bossy-Wetzel, and Douglas R. Green
CSH Protocols; 2006; doi:10.1101/pdb.prot4435
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Measurement of DNA Content Using Propidium Iodide (PI) Staining of Fixed Whole Cells
Linda Rodgers
CSH Protocols; 2006; doi:10.1101/pdb.prot4436
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Propidium Iodide (PI) or DAPI Staining of Unfixed Tissue Culture Cells for Flow Cytometry
Linda Rodgers
CSH Protocols; 2006; doi:10.1101/pdb.prot4437
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Propidium Iodide (PI) or DAPI Staining of Unfixed Solid Tissues for Flow Cytometry
Linda Rodgers
CSH Protocols; 2006; doi:10.1101/pdb.prot4438
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Fluorescent Staining of Cell Surface Antigens on Viable Cells Using Direct Immunofluorescence
Linda Rodgers
CSH Protocols; 2006; doi:10.1101/pdb.prot4439
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Fluorescent Staining of Cell Surface Antigens on Viable Cells Using Indirect Immunofluorescence
Linda Rodgers
CSH Protocols; 2006; doi:10.1101/pdb.prot4440
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Concentrating Hypotrichs
Carolyn L. Jahn
CSH Protocols; 2006; doi:10.1101/pdb.prot4442
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Transfection of Hippocampal Neurons with Plasmid DNA Using Calcium Phosphate Co-precipitation
Bernhard Goetze and Michael Kiebler
CSH Protocols; 2006; doi:10.1101/pdb.prot4445
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Gene Delivery to Skin Using Biolistics
William C. Heiser
CSH Protocols; 2006; doi:10.1101/pdb.prot4446
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Micro In Utero Electroporation for Efficient Gene Targeting in Mouse Embryos
Tomomi Shimogori
CSH Protocols; 2006; doi:10.1101/pdb.prot4447
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Lipoplex and LPD Nanoparticles for In Vivo Gene Delivery
Shyh-Dar Li, Song Li, and Leaf Huang
CSH Protocols; 2006; doi:10.1101/pdb.prot4448
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Optimizing Electrotransfection of Mammalian Cells In Vitro
Shulin Li
CSH Protocols; 2006; doi:10.1101/pdb.prot4449
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Bioresponsive Targeted Charge Neutral Lipid Vesicles for Systemic Gene Delivery
Weijun Li and Francis C. Szoka, Jr.
CSH Protocols; 2006; doi:10.1101/pdb.prot4450
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PEI Nanoparticles for Targeted Gene Delivery
Frank Alexis, Jieming Zeng, Shu Wang
CSH Protocols; 2006; doi:10.1101/pdb.prot4451
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Storage of Bacterial Cultures Growing in Liquid Media
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4452
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Storage of Bacterial Cultures Growing on Solid Medium
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4453
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Estimation of Cell Number by Hemocytometry Counting
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4454
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Purification of Nucleic Acids by Extraction with Phenol:Chloroform
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4455
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Standard Ethanol Precipitation of DNA in Microcentrifuge Tubes
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4456
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Concentrating and Desalting Nucleic Acids with Microconcentrators
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4457
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Fluorometric Quantitation of DNA Using Hoechst 33258
Joseph Sambrook and David W. Russell
CSH Protocols; 2006; doi:10.1101/pdb.prot4458
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Static Culture of Postimplantation Embryos for Imaging
Mary Dickinson, Elizabeth Jones, David Crotty, Scott Fraser
CSH Protocols; 2006; doi:10.1101/pdb.prot4459
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Mounting Samples in DPX
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4460
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Mounting Samples in Gelvatol or Mowiol
Ed Harlow and David Lane
CSH Protocols; 2006; doi:10.1101/pdb.prot4461
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