STANDARD OPERATING PROCEDURE

1 Q-pulse5/docs/active/TADG42v6 page 1 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on STANDARD OPERATING PROCEDURE Title: TAD Laboratory User Handbook Document number: TADG0042 Version number: 6 (Changes from previous version highlighted) Written by: TAD Working Group Checked by: N/A Approved by: Dr. Kone Active date: 18-01-2012 Date of next review Date reviewed Reviewed by Action 18-01-2013 Date withdrawn: .. Q-pulse5/docs/active/TADG42v6 page 2 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on STANDARD OPERATING ALPHABETICAL LIST OF AVAILABLE TESTS.

2 3 TAD TELEPHONE GUIDE .. 25 PATHOLOGY SERVICES .. 26 A. DEPARTMENT OF ANATOMICAL PATHOLOGY .. 30 B. CHEMICAL PATHOLOGY .. 36 MOLECULAR MEDICINE .. 49 REFERRALS .. 52 DYNAMIC FUNCTION TESTS .. 62 APPENDIX 1: Aldosterone and renin .. 62 APPENDIX 2: VMA (vanillyl mandelic acid) and catecholamines .. 62 APPENDIX 3: Cholesterol, triglyceride, lipogram, lipoprotein electrophoresis .. 62 APPENDIX 4: Patient PROCEDURE for sampling for creatinine clearance assessment:62 APPENDIX 5: Urine 5-HIAA (5-hydroxy-indoleacetic acid) .. 62 APPENDIX 6: Prolactin .. 63 APPENDIX 7: Lactate .. 63 APPENDIX 8: Xanthochromia suspected subarachnoid haemorrhage .. 63 C. DEPARTMENT HAEMATOLOGY .. 64 Test ..65 D. IMMUNOLOGY .. 73 E. DEPARTMENT OF MEDICAL MICROBIOLOGY .. 80 F. DEPARTMENT OF MEDICAL VIROLOGY.

3 94 Tests available at the Virology laboratory .. 95 Q-pulse5/docs/active/TADG42v6 page 3 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on ALPHABETICAL LIST OF AVAILABLE TESTS TEST TESTING LABORATORY A -1-Antitrypsin-Blood Chemistry NHLS NJH -1-Antitrypsin clearance Stools (24hr) and blood Chemistry NHLS Groote Schuur -1-Antitrypsin clearance Stools (random) Ampath Laboratories -1-Antitrypsin genotyping Serogenetics NHLS Braamfontein -Foetoprotein Chemistry NHLS TAD -Galactosidase (Fabry s disease) Serogenetics NHLS Braamfontein -Glucosidase (Pompe s disease) Serogenetics NHLS Braamfontein -I-iduronidase (Hurler s syndrome) Serogenetics NHLS Braamfontein -Thalassaemia mental retardation syndrome (ATR-X) Molecular Genetics NHLS Braamfontein -Tocopherol (vitamin E) Chemistry NHLS NJH Acanthamoeba keratitis Microbiology NHLS TAD Acetaminophen (Paracetamol) Chemistry NHLS TAD Acetyl cholinesterase (red blood cell) Chemistry NHLS NJH Acetylcholine receptor antibodies Immunology NHLS TAD Acid phosphatase (tartrate-resistant) Haematology NHLS TAD Acid phosphatase (tartrate-resistant) Semen Chemistry NHLS NJH ACLA (Anti-cardiolipin antibodies) IgG, IgA & IgM Immunology NHLS TAD ACTH Chemistry NHLS Dr George Mukhari Activated protein C resistance (APCR) Haematology NHLS TAD Acute-phase protein (CRP)

4 Chemistry NHLS TAD Adenosine deaminase (ADA) Chemistry NHLS TAD Adenosine deaminase CSF or fluids Chemistry NHLS TAD ADH (anti-diuretic hormone) Not available Adenovirus antigen ELISA Virology NHLS TAD Adenovirus antigen IF Virology NHLS TAD Adenovirus antigen in stool - ICT Microbiology NHLS TAD Adenovirus isolation Virology NHLS DGM/NICD Adrenaline Plasma (see catecholamines) Chemistry NHLS NJH Adrenal Antibodies Immunology NHLS TAD AFP (alpha-foetoprotein) Chemistry NHLS TAD AGP Haematology NHLS NJH Albinism (OCA2) Molecular Genetics NHLS Braamfontein Albumin Chemistry NHLS TAD Albumin CSF Chemistry NHLS TAD Albumin Fluid Chemistry NHLS TAD Albumin gradient (serum-ascites) Chemistry NHLS TAD Alcohol Chemistry NHLS TAD Aldosterone Chemistry NHLS NJH Alkaline phosphatase Chemistry NHLS TAD Alkaline phosphatase (bone-specific) Chemistry NHLS NJH Alkaline phosphatase (isoenzymes) Chemistry NHLS NJH ALL profile t(9;22), 11q23 and t(12.)

5 21) Cancer Cytogenetics,JHB Allergy test (RAST) Immunology NHLS TAD ALT Chemistry NHLS TAD Q-pulse5/docs/active/TADG42v6 page 4 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on TEST TESTING LABORATORY Aluminium Blood Chemistry NHLS NJH Aluminium Urine (random) Chemistry NHLS NJH Amikacin serum level Chemistry NHLS TAD Amino acids Plasma or CSF Red Cross Hospital NHLS Amino acids Urine (screening and quantitative) Red Cross Hospital NHLS Aminolevulinic acid (ALA) Urine (random/24hr) Chemistry NHLS NJH Aminophylline Chemistry NHLS TAD Ammonia Chemistry NHLS TAD Amniotic fluid (cytology) Cytology NHLS Braamfontein Amniotic fluid OD450 Ampath Laboratories Amoebae (including Entamoeba histolytica) Microbiology NHLS TAD Amoebic antibodies Immunology NHLS TAD Amoebic liver abscess (Entamoeba histolytica) Microbiology NHLS TAD Amphetamines (screen) - Urine (random) Chemistry NHLS TAD Ampullary brushings Cytology NHLS Braamfontein Amylase Chemistry NHLS TAD Amylase - Fluids Chemistry NHLS TAD Amylase Urine Chemistry NHLS TAD ANCA (Anti-neutrophil cytoplasmic antibody) Immunology NHLS TAD Andermann syndrome Molecular Genetics NHLS Braamfontein Androstenedione Chemistry NHLS NJH Angelman syndrome Molecular Genetics NHLS Braamfontein Angiotensin-converting enzyme (ACE)

6 Chemistry NHLS TAD corelab Antibody test for malaria Serology NHLS Braamfontein Anti-cardiolipin antibodies (ACLA) IgG & IgM Immunology NHLS TAD Anti-CCP (Cyclic citrullinated Peptide) Immunology NHLS TAD Anti-chief cell antibodies Immunology NHLS TAD Anti-collagen screen Immunology NHLS TAD Anti-DNAse B Immunology NHLS TAD Anti-double-stranded DNA Immunology NHLS TAD Anti-factor Xa assay Haematology NHLS NJH Antifreeze poisoning (ethylene glycol) - random urine Pharmacology Universitas Hospital Antifungal susceptibility testing Microbiology NHLS TAD Anti-ganglioside antibodies (anti- GM1 and GD1b) Immunology NHLS TAD Anti-Gliadin (IgA, IgG) antibodies Immunology NHLS TAD Anti-histone antibodies Immunology NHLS TAD Antigen test for Plasmodium falciparum Immunology NHLS TAD Antigen test for Wuchereria Immunology NHLS TAD Anti-glomerular basement membrane antibodies Immunology NHLS TAD Anti-islet cell antibodies Immunology NHLS TAD Anti-Jo-1 antibodies Immunology NHLS TAD Anti-liver-kidney antibodies Immunology NHLS TAD Anti-microsomal antibodies Immunology NHLS TAD Anti-mitochondrial antibodies Anti-Mullerian hormone (AMH) Immunology NHLS TAD Lancet Laboratories Anti-neuronal antibodies (paraneoplastic autoantibodies) Ampath Laboratories Anti-neutrophil cytoplasmic antibodies (ANCA) Immunology NHLS TAD Anti-nucleosome antibodies Immunology NHLS TAD Anti-nuclear antibodies (ANA)

7 Immunology NHLS TAD Anti-nuclear factor (ANF) Immunology NHLS TAD Q-pulse5/docs/active/TADG42v6 page 5 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on TEST TESTING LABORATORY Anti-pancreas antibodies Immunology NHLS TAD Anti-pancreas islet cell (PIC) antibodies Immunology NHLS TAD Anti-parietal antibodies Immunology NHLS TAD Anti-phospholipid antibodies Immunology NHLS TAD Anti-ribosomal P antibodies Immunology NHLS TAD Anti-Saccharomyces cerevisiae antibodies (ASCA) Immunology NHLS TAD Anti-scleroderma 70 antibodies Immunology NHLS TAD Anti-skin basement membrane antibodies Immunology NHLS TAD Anti-skin intracellular antibodies Immunology NHLS TAD Anti-smooth muscle antibodies Immunology NHLS TAD Anti-streptolysin O (ASOT) Immunology NHLS TAD Anti-striated muscle antibodies for Myasthenia gravis Immunology NHLS TAD Antithrombin (ATIII) Haematology NHLS TAD Anti-thyroglobulin antibodies Immunology NHLS TAD Anti-voltage-gated calcium channel (VGCC) antibodies Ampath Laboratories Antral aspirates/sinus washings for M C & S Microbiology NHLS TAD Antral aspirates/sinus washings Cytology NHLS Braamfontein Apolipoprotein A1 Ampath Laboratories Apolipoprotein B Ampath Laboratories Aquaporin (-4) antibodies (Neuromyelitis Optica)

8 Ampath Laboratories Arboviruses (West Nile, Sindbis, Chikungunya, Rift Valley fever) Virology NHLS NICD Arthritis screen Immunology NHLS TAD ARX Molecular Genetics NHLS Braamfontein Arylsulfatase-A (metachromatic leukodystrophy) Serogenetics NHLS Braamfontein Arylsulfatase-B Serogenetics NHLS Braamfontein Ascaris lumbricoides (common roundworm) Microbiology NHLS TAD Ascaris RAST Test Immunology NHLS Braamfontein Ashkenazi Jewish screen Molecular Genetics NHLS Braamfontein ASO Anti Streptolysin O antibodies Immunology NHLS TAD AST (SGOT) Chemistry NHLS TAD Astrovirus Antigen detection - ELISA Virology NHLS TAD Auto-antibodies Immunology NHLS TAD Auto-immune profile Immunology NHLS TAD B -2 Glycoprotein 1 Immunology NHLS TAD -2-Microglobulin Immunology NHLS TAD -2 Transferrin (CSF identification) - Rhino-/otorrhoea fluids Chemistry NHLS TAD Carotene (vitamin A) Chemistry NHLS NJH Galactosidase (Krabbe's disease) Serogenetics NHLS Braamfontein -Glucosidase (Gaucher's disease) Serogenetics NHLS Braamfontein -2 Glycoprotein 1 antibodies Immunology NHLS TAD -hCG (qualitative) Chemistry NHLS Kalafong -hCG (quantitative) Chemistry NHLS TAD -Hydroxybutyrate Red Cross Hospital NHLS -Hydroxybutyrate.

9 Free fatty acid ratio Red Cross Hospital NHLS -Thalassaemia (BTH) Molecular Genetics NHLS Braamfontein bancrofti (lymphatic filariasis or elephantiasis) antibodies Parasitology NICD Barbiturates (screen) Urine Chemistry NHLS NJH- Q-pulse5/docs/active/TADG42v6 page 6 of 102 In the event of a dispute concerning this document, the most recent version can be accessed through or verified by Dr N Kone on / Mrs Leonie Boshoff on TEST TESTING LABORATORY B-cells Immunology NHLS TAD B-cells - IgH PCR Immunology NHLS NJH Becker/Duchenne muscular dystrophy (BMD/DMD) Molecular Genetics NHLS Braamfontein Bence-Jones protein Urine Chemistry NHLS TAD Benzodiazepines (screen) Urine Chemistry NHLS TAD Bile duct aspirates Cytology NHLS Braamfontein Bile duct brushings Cytology NHLS Braamfontein Bilharzia (Schistosoma mansoni & haematobium) Microbiology NHLS TAD Bilharzia antibodies Immunology NHLS TAD Bilirubin (dipstick) Chemistry NHLS TAD Bilirubin (direct) Chemistry NHLS TAD Bilirubin (total) Chemistry NHLS TAD BK virus PCR Virology NHLS (Referral Toga) Blastocystis hominis Microbiology NHLS TAD Blood culture aerobic & anaerobic Microbiology NHLS TAD Blood culture paediatric Microbiology NHLS TAD Blood grouping Haematology NHLS TAD Blood-brain barrier studies including oligoclonal bands Ampath Laboratories Bloom syndrome Molecular Genetics NHLS Braamfontein BMCA (chromosome analysis on marrow)

10 Cancer Cytogenetics, JHB Bone marrow aspirate (BMA) Haematology NHLS TAD Bone marrow aspirate (BMA) culture Microbiology NHLS TAD Bone marrow transplant (compatibility) Immunology NHLS TAD Bone marrow trephine (BMT) Anatomical Pathology NHLS TAD Bone-specific ALP Chemistry NHLS NJH Bowel cancer Molecular Genetics NHLS Braamfontein BRCA1/2 (Afrikaner and Ashkenazi Jewish breast cancer mutations) Molecular Genetics NHLS Braamfontein Breast aspirates (cytology) Cytology NHLS Braamfontein Brodifacoum (super warfarin) Ampath Laboratories Bronchial alveolar lavage (BAL) Cytology NHLS Braamfontein Bronchia