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Major applications of protein blotting have developed in two areas: (1) the analysis of protein-DNA interactions and (2) the separation of proteins for microsequencing. Protein blotting has also been used to affinity purify individual antibodies from a polyclonal antiserum by elution from blots using pH shock.
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Protein identification is becoming a complement to the available fully sequenced genomes. To meet the challenge, newly developed techniques for high throughput protein identification using matrix-assisted laser desorption/ionisation mass spectrometry (MALDI-MS) and peptide mass fingerprint are needed.