Collect and fix a standard list of tissues from the complete necropsy (see IMPC Gross Pathology & Tissue Collection SOP)
Trim the fixed tissues into cassettes for processing
Embed the tissues in paraffin in a standard orientation
| Adrenal gland | Heart | Mammary gland | Skin | Thymus |
| Brain | Kidney | Ovary | Small intestine | Thyroid |
| Epididymis | Large intestine | Pancreas | Spinal cord | Trachea |
| Esophagus | Liver | Prostate | Spleen | Urinary bladder |
| Eye with optic nerve | Lung | Seminal vesicles | Stomach | Uterus |
| Gall bladder | Lymph node | Skeletal muscle | Testes |
| Tissue | Number of Tissue Pieces | Embedding Orientation |
|---|---|---|
| Brain | Up to 5 | Transverse or Mid-sagittal |
| Eye with optic nerve | 1 (per eye) | Sagittal (optic nerve parallel to cassette surface) |
| 1 (per eye) | Sagittal (within skull) | |
| Spinal cord | Up to 6 | Cross |
| Thymus | 1 | Flat |
| Thyroid | 1 (with trachea) | Cross |
| Heart | 1 or 2 | Cross or Sagittal |
| Trachea | 1 (with thyroid) | Cross |
| Esophagus | 1 | Cross |
| Lung | Up to 5 | Cross or Sagittal |
| Liver | Up to 2 | Cross |
| Gall bladder | 1 (with liver) | Cross |
| Stomach | Up to 2 | Cross |
| Small intestine | 1 | Cross |
| Large intestine | 1 | Cross |
| Pancreas | 1 | Flat |
| Spleen | 1 | Flat or Cross |
| Kidney | 1 or 2 | Cross and Sagittal |
| Adrenal gland | At least 1 | Cross or Sagittal |
| Mammary gland | At least 1 | Flat |
| Lymph node | At least 1 | Flat |
| Skin | Up to 5 | Cross on edge |
| Skeletal muscle | At least 1 | Cross |
| Urinary bladder | 1 | Flat |
| Testes | At least 1 | Flat |
| Epididymis | At least 1 | Flat |
| Prostate | 1 | Flat |
| Seminal vesicles | At least 1 | Flat |
| Ovary | At least 1 | Flat |
| Uterus | 1 | Flat or Cross |
The age of the animals at which they undergo this procedure is an important data. It is, however, derived from the date of birth and the date of necropsy of the animal, the latter being a metadata parameter. Similar situation applies to the number of animals that a centre has submitted to this procedure - it will also be derived and subject to quality control of the data.
| Name | Type | Increment | Option | Unit | Data Type | Derived |
|---|---|---|---|---|---|---|
| Brain | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Eye 1 with optic nerve (optic nerve parallel to cassette surface) | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Eye 2 with optic nerve (within skull) | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Spinal cord | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Thymus | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Thyroid | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Heart | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Trachea | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Esophagus | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Lung | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Liver | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Gall bladder | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Stomach | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Small intestine | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Large intestine | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Pancreas | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Spleen | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Left Kidney | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Right Kidney | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Left Adrenal gland | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Right Adrenal gland | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Mammary gland | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Lymph node | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Skin | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Skeletal muscle | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Urinary bladder | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Testes | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Epididymis | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Prostate | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Seminal vesicles | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Ovary | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Uterus | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Additional tissues | simpleParameter | Blocked banked / Not Block banked | TEXT | |||
| Sternum | simpleParameter | Block banked / Not Block banked | TEXT | |||
| Femur | simpleParameter | Block banked / Not Block banked | TEXT | |||
| Knee joint | simpleParameter | Block banked / Not Block banked | TEXT | |||
| Tongue | simpleParameter | Block banked / Not Block banked | TEXT | |||
| Sciatic nerve | simpleParameter | Block banked / Not Block banked | TEXT | |||
| Date of sacrifice | procedureMetadata | DATETIME | ||||
| Date of necropsy | procedureMetadata | DATETIME | ||||
| Experimenter ID | procedureMetadata | TEXT | ||||
| Fixative | procedureMetadata | 10% buffered formalin phosphate | TEXT | |||
| Tissue storage ID(s) | procedureMetadata | TEXT | ||||
| Embedding medium | procedureMetadata | Paraffin | TEXT |