IMPReSS Displaying Protocol Tissue Embedding and Block Banking

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Tissue Embedding and Block Banking IMPC_BLK_001

Purpose
Experimental Design
Procedure
Notes
Parameters
Metadata

Purpose

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

Experimental Design

Minimum number of mutant animals: 2 mutant males + 2 mutant females

Minimum age of animals: 16 weeks

Procedure

The following 29 tissues are collected and wet fixed at necropsy (according to IMPC Gross Pathology & Tissue Collection SOP)

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

Trim the fixed tissue into labelled cassettes for processing according to Centre-specific SOP
Process the cassettes according to Centre-specific SOP
Embed the tissues in paraffin using the orientation below:

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.

Parameters

	Version	Type	Option	Data Type
Brain IMPC_BLK_010_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Eye 1 with optic nerve (optic nerve parallel to cassette surface) IMPC_BLK_011_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Eye 2 with optic nerve (within skull) IMPC_BLK_012_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Spinal cord IMPC_BLK_013_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Thymus IMPC_BLK_014_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Thyroid IMPC_BLK_015_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Heart IMPC_BLK_016_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Trachea IMPC_BLK_017_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Esophagus IMPC_BLK_018_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Lung IMPC_BLK_019_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Liver IMPC_BLK_020_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Gall bladder IMPC_BLK_021_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Stomach IMPC_BLK_022_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Small intestine IMPC_BLK_023_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Large intestine IMPC_BLK_024_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Pancreas IMPC_BLK_025_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Spleen IMPC_BLK_026_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Left Kidney IMPC_BLK_027_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Right Kidney IMPC_BLK_028_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Left Adrenal gland IMPC_BLK_029_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Right Adrenal gland IMPC_BLK_030_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Mammary gland IMPC_BLK_031_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Lymph node IMPC_BLK_032_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Skin IMPC_BLK_033_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Skeletal muscle IMPC_BLK_034_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Urinary bladder IMPC_BLK_035_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Testes IMPC_BLK_036_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Epididymis IMPC_BLK_037_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Prostate IMPC_BLK_038_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Seminal vesicles IMPC_BLK_039_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Ovary IMPC_BLK_040_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Uterus IMPC_BLK_041_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Additional tissues IMPC_BLK_042_001	1.1	simpleParameter	Blocked bankedNot Block banked	TEXT
Salivary gland IMPC_BLK_043_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Sternum IMPC_BLK_044_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Femur IMPC_BLK_045_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Bone marrow IMPC_BLK_046_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Brown fat IMPC_BLK_047_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Tibia IMPC_BLK_048_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Knee joint IMPC_BLK_049_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Trigeminal V nerve IMPC_BLK_050_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Nasal cavity IMPC_BLK_051_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Ear IMPC_BLK_052_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Tooth IMPC_BLK_053_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Tongue IMPC_BLK_054_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Sciatic nerve IMPC_BLK_055_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT
Bone IMPC_BLK_056_001	1.0	simpleParameter	Block bankedNot Block banked	TEXT

Metadata