Epitope Tagging Basic Laboratory Methods
last update April 26, 2000


Chapter 1: Introduction to Epitope Tagging



Section 1A: About This Manual 1.2
Section 1B: About Epitope Tagging 1.3
What is epitope tagging? 1.3
Why tag proteins? 1.3
Section 1C: Getting Started with Epitope Tagging 1.5
How should I prepare the tagged protein? 1.5
What immunological techinque can I use with tagged proteins? 1.8
Table: Suggested working concentrations for Boehringer Mannheim antibodies 1.9

Chapter 2: Molecular Tagging



Section 2A: About the Molecular Tagging Procedures 2.2
Section 2B: Addition of an Epitope Tag Sequence to a Target Gene by PCR 2.3
Critical factors for success: Designing PCR primers for epitope tagging 2.3
Getting started: Procedures for epitope tagging by PCR 2.6
Troubleshooting the PCR procedure 2.8
Specific application of PCR procedures 2.8
Section 2C: Addition of an Epitope Tag Sequence to a Target Gene via an Adaptor -Duplex 2.10
Critical factors for success: Designing an adaptor-duplex using the epitope tag sequence 2.10
Getting started: Procedures for adding a c-myc, HA, or VSV-G adaptor-duplex to the N-terminal coding region of a target gene on a prokaryotic expression vector 2.11
Section 2D: Strategies for Construction of an Expression Vector Containing an Epitope Tag Sequence 2.13
What an epitope-tagging vector should contain 2.13
Existing epitope-tagging vectors 2.14

Chapter 3: Analysis of Tagged Proteins



Section 3A: Analysis on a Western Blot 3.2
Overview of technique 3.2
Critical factors for successful Western blots 3.2
Getting Started: Procedures for Western blotting 3.4
Troubleshooting the Western blot procedure 3.10
Specific applications 3.12
Section 3B: Analysis of Immunofluorescence Microscopy 3.13
Overview of technique 3.13
Critical factors for success with immunofluorescence staining 3.13
Getting started: Procedures for immunofluorescence microscopy 3.14
Troubleshooting the immunofluorescence technique 3.19
Specific applications 3.20

Chapter 4: Immunoaffinity Purification of Tagged Proteins



Section 4A: Overview of Immunoaffinity Purification Methods 4.3
Section 4B: Critical Factors for Successful Analysis and Purification of Tagged Proteins 4.4
Preventing proteolysis during sample purification 4.4
Preparation of cell lysate 4.4
Section 4C: Purification by Affinity Chromatography 4.6
Overview of technique 4.6
Getting started: Procedures for affinity chromatography 4.6
Troubleshooting affinity chromatrgraphy 4.12
Section 4D: Purification by Immunoprecipitation 4.15
Overview of technique 4.15
Critical factors for successful immunoprecipitation 4.15
Getting started: Procedures for immunoprecipitation 4.16
Tips on using other tag-specific antibodies for immunoprecipitation 4.20
Troubleshooting the immunoprecipitation procedure 4.21
Specific applications 4.22

Chapter 5: Reference Manual



Section 5A: Frequently Asked Questions About Epitope Tagging 5.2
Section 5B: Boehringer Mannheim Product Ordering Guide 5.4
Section 5C: Experimental Uses for Epitope Tagging 5.11
Author: Dr. J. Keesey



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