Gross Pathology and Tissue Collection [LA_PAT_002]

Purpose

To perform a complete necropsy to detect and record abnormal external findings and macroscopic alterations in internal and external organs, record body and heart weights (see IMPC Heart Weight SOP), and collect a standardized list of tissues for fixation with or without further processing (see non-mandatory IMPC Tissue Embedding & Block Banking SOP).

Experimental Design

Equipment

Procedure

  1. Sacrifice the mouse
  2. Weigh and record total body weight (if not done separately)
  3. Place mouse on its back and pin the mouse onto board with extended extremities (inner side of hands and foot)
  4. Wipe or spray the mouse with 70% ethanol to control hair and dander
  5. Proceed with a complete necropsy and tissue collection according to Center-specific technical SOP but be sure to collect the IMPC 'Tissue Collection List' (below) and remove the heart and record its weight according to the IMPC Heart Weight SOP. Inidividual Centers may collect any additional tissue according to Centre-specific technical SOPs.
  6. Capture any images of abnormal findings and save images in Centre-specific database
  7. Place all tissue collected in a labelled jar containing a sufficient volume of fixative (minimum of 10:1 fixative to tissue)
  8. Record all abnormal findings in a Center-specific database using the standardized IMPC Gross Pathology ontology:
    1. MA ontology terms for location/topography
    2. MP ontology terms for presence/absence/large/small/abnormal
    3. PATO ontology terms for descriptors (size, shape, colour, consistency, distribution of lesions)

Notes

Banking of the fixed tissue for long-term storage is according to Centre-specific SOPs (including storage fixative). Options for long-term storage of the fixed tissue include:

Data QC

Images of significant gross findings will be captured as static image files (.tiff or .jpg). Images will be not be annotated but linked by metadata to the mouse line.

Parameters & Metadata

DOWNLOAD (EXCEL)

Name Type Increment Option Unit Data Type Derived
Brain ontologyParameter TEXT
Eye with optic nerve ontologyParameter TEXT
Spinal cord ontologyParameter TEXT
Thymus ontologyParameter TEXT
Thyroid ontologyParameter TEXT
Heart ontologyParameter TEXT
Trachea ontologyParameter TEXT
Esophagus ontologyParameter TEXT
Lung ontologyParameter TEXT
Liver ontologyParameter TEXT
Gall bladder ontologyParameter TEXT
Stomach ontologyParameter TEXT
Small intestine ontologyParameter TEXT
Large intestine ontologyParameter TEXT
Pancreas ontologyParameter TEXT
Spleen ontologyParameter TEXT
Kidney ontologyParameter TEXT
Adrenal gland ontologyParameter TEXT
Mammary gland ontologyParameter TEXT
Lymph node ontologyParameter TEXT
Skin ontologyParameter TEXT
Skeletal muscle ontologyParameter TEXT
Urinary bladder ontologyParameter TEXT
Testes ontologyParameter TEXT
Epididymis ontologyParameter TEXT
Prostate ontologyParameter TEXT
Seminal vesicle ontologyParameter TEXT
Ovary ontologyParameter TEXT
Uterus ontologyParameter TEXT
Date of sacrifice procedureMetadata DATETIME
ID for sample banking protocol procedureMetadata RBRC_PAT_SBP_001 TEXT
Comments (in English) simpleParameter TEXT
Body Weight simpleParameter g FLOAT
Experimenter ID procedureMetadata TEXT
Method of sacrifice procedureMetadata Medetomidine/Midazolam/Butorphanol TEXT
Equipment ID procedureMetadata PAT-M-04 TEXT
Images seriesMediaParameter Minimum 1 IMAGE
Fixative procedureMetadata 10% buffered formalin phosphate TEXT
Equipment manufacturer procedureMetadata Keyence Co., Ltd TEXT
Equipment model procedureMetadata VHX-6000 TEXT
Salivary gland ontologyParameter TEXT
Sternum ontologyParameter TEXT
Trigeminal V nerve ontologyParameter TEXT
Tongue ontologyParameter TEXT
Bone ontologyParameter TEXT