Figure 1
Organization of the Parelsnoer Institute.
Table 1
Summary of procedures on collection, processing and storage of samples defined in the biobanking protocol of PSI.†
| Sample | Volume/number | Processing | Time | Aliquoting | Storage |
|---|---|---|---|---|---|
| Serum | 10 ml clotted blood | 2000 × g at room temperature or 4°C for 10 minutes | Within 2–4 hours | ≥ 5 × 0.5 ml | –80°C |
| EDTA plasma | 10 ml | 2000 × g at room temperature or 4°C for 10 minutes | Within 2–4 hours | ≥ 5 × 0.5 ml | –80°C |
| Citrate plasma | 9 ml | 2000 × g at room temperature for 10 minutes | Within 2–4 hours | ≥ 5 × 0.5 ml | –80°C |
| DNA (blood) | 10 ml EDTA blood | Whole blood or cell pellet, to UMC specifications | Within 4 weeks (4°C) or 3 months (< –20°C) | ≥ 2 stock aliquots | 4°C or lower |
| Faeces | Not specified | Direct storage or after homogenization | Within 12 hours | ≥ 5 × 5 gr | –80°C |
| Urine +/– antioxidants (AO) | Not specified, midstream | 2000 × g at room temperature or 4°C (AO) for 10 minutes | Within 4 hours | 6 aliquots 0.9 ml | –80°C |
| Cerebrospinal fluid | 3–20 ml | 2000 × g at room temperature or 4°C for 10 minutes | Within 2 hours | ≥ 6 × 0.5 ml | –80°C in polypropylene tubes |
| Biopsy FFPE | n* per location# | Formalin fixation and paraffin embedding | Immediate fixation | Per set | Room temperature |
| Biopsy frozen | n* per location# | Snap frozen in isopentane | Immediate | Per set | –80°C |
| Resection specimen FFPE | n* per location# | Snap frozen in isopentane | At pathology | 0.5 cm3 samples | Room temperature |
| Resection specimen frozen | n* per location# | Snap frozen in isopentane | At pathology | 0.5 cm3 samples | –80°C |
| Pancreatic cyst fluid | ≥ 0.5 ml | None | Within 2–4 hours | 0.5 ml portions | –80°C |
| Viable cells (PBMCs or bone marrow) | 20–40 ml heparinized sample | Density centrifugation at room temperature | Within 24 hours | 10 × 10E6 cells per cryovial | –130°C |
[i] † Deviations to be registered: hemolytic, lipemic, icteric, wrong tube, volume incorrect, storage temperature deviation, longer storage time, mixing/homogenization incorrect, centrifugation process different, storage problem, other deviation as free text.
* as specified by Pearl.
# for instance normal or affected or inflamed or tumor in intestinal tract or skin.
PBMCs: peripheral blood mononuclear cells.
Figure 2
IT Infrastructure of PSI.
Table 2
The number of included patients per Pearl.*
| Pearl† | Number of patients with clinical data | Number of patients with biomaterials |
|---|---|---|
| Congenital heart disease | 5400 | 5400 |
| Cerebrovascular accident | 5815 | 5374 |
| Diabetes | 6673 | 6226 |
| Hereditary colorectal cancer | 1853 | 1534 |
| Inflammatory bowel disease | 4642 | 4139 |
| Ischemic heart disease | 632 | 412 |
| Leukemia, myeloma and lymphoma | 1755 | 1596 |
| Neurodegenerative disease | 1213 | 1122 |
| Esophageal and gastric cancer | 122 | 93 |
| Pancreatic cancer and pancreatitis | 318 | 282 |
| Renal failure | 1991 | 1963 |
| Rheumatoid arthritis and arthrosis | 2277 | 2190 |
[i] * dd December 12, 2016.
† Three Pearls (i.e., Multiple Endocrine Neoplasia, Abdominal A.