In 2D-electrophoresis we have a very complex situation mainly in the trouble shooting. A good overview can be achieved if you read the 2 books of Dr. Reiner Westermeier
Reiner Westermeier: Electrophoresis in Practice (4ourth edition) ISBN 978-3-527-31181-1
Reiner Westermeier: Proteomics in Practice (4ourth edition) ISBN 3-527-30300-6
EDCElectrophoresis Development & Consulting, Vor dem Kreuzberg 17, 72070 Tübingen (Germany)