Hydrophobic interaction chromatography (HIC) is based on complex interactions between the separation media and biomolecules. This compexity is due to that the salt‐mediated mechanism for attraction in unusually dependent also on the individual sterical structures of the counterparts. A hydrophobic ligand thus may express different separation selectivitiy patterns when coupled to different media with different tecniques. Prediction of results therefore cannot be made based on experiments performed on another separation medium with the same ligand. HIC uses moderately hydrophobic ligands where the molecules to be separated are forced to attach to the columns by increasing the ionic strength of the eluent. It is mainly used for large biomolecules forming multipoint attraction with the medium. Elution is performed with gradients of decreasing ionic strength and short and wide columns are used to optimize the separation. Tertiary structures tend to be preserved but attached molecules should be eluted as soon as possible due to the risc of confomational changes and enhanced binding making elution difficult. An HIC medium may be characterized by the profile of elution data of a set of marker proteins using PCA making possible the comparision and classification of media and prediction of results. Optimization is facilitated by running the sample through columns eqilibrated with stepwise higher ionic strength.