Liability statementBy using a Digitised Thesis, I accept that Trinity College Dublin bears no legal responsibility for the accuracy, legality or comprehensiveness of materials contained within the thesis, and that Trinity College Dublin accepts no liability for indirect, consequential, or incidental, damages or losses arising from use of the thesis for whatever reason. Information located in a thesis may be subject to specific use constraints, details of which may not be explicitly described. It is the responsibility of potential and actual users to be aware of such constraints and to abide by them. By making use of material from a digitised thesis, you accept these copyright and disclaimer provisions. Where it is brought to the attention of Trinity College Library that there may be a breach of copyright or other restraint, it is the prognostic marker 1.8.5 ZAP-70 expression, its relation to IgVH and CD38 and its significance as an 52 independent prognostic marker 1.8.6 Use o f FCR chemomimmunotherapy, and the search for new biomarkers using Proteomics CHAPTER 2 MATERIALS AND METHODS 2.1 Patients 2.1.1 Consent, History, Clinical examination 2.2 Morphology 2.2.1 Peripheral Blood 2.2.2 Bone marrow involvement 2.3 Cell separation and storage 2.3.1 Density gradient cell separation 2.3.2 Cell storage for Fluorescent m «7w hybridisation (FISH) 2.3.3 Storage o f cells fornucleic acid extractions 2.3.3.1 DNA extraction and quantification 2.3.3.2 RNA extraction and quantification 2.3.4 Freezing cells 2.3.5 Thawing cells 59 60 2.4 Fluorescence in situ hybridization (FISH) 2.4.1 Slide preparation 60 2.4.2 Pepsin digestion 60 2.4.3 Denaturation o f the slides/sample and probe 61 2.4.3.1 Slides/Samples 61 2.4.3.2 Probe 61 2.4.4 Hybridization 61 2.4.5 W ashing 61 2.4.6 Sample Analysis 62 2.4.6.1 Probe description and analysis 2.5 IgVH mutational analysis 2.5.1 cDNA synthesis 2.