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There are three types of metadata files for MODEL-AD: 

  1. Individual Animal

  2. Biospecimen

  3. Assay

Individual Animal

This file contains metadata about each individual animal that is part of a study.  It includes information that is true of the animal as a whole:  individualID, genotype, room, litter, etc.  Each animal will have one row in the individual animal metadata template. In order for your metadata to validate successfully, please use the latest version of the MODEL-AD individual animal metadata template. 

Mouse Names

Biospecimen

A biospecimen is a sample of cells, tissue, RNA, DNA, etc.  The biospecimen metadata file contains information about each biospecimen that is part of a study, including things like what organ and tissue the specimen is from, the weight of the specimen, etc.  Please see the biospecimen metadata template for a current template to work with.

The biospecimen metadata file is linked to the individual animal metadata file by the ‘individualID’ variable, which appears in both files.  The individualID variable should be consistent across these two files.  Each individualID may have more than one associated specimenID.  Note that not all data will have an associated biospecimen – things like behavioral studies or imaging may only have records in the individual animal metadata file.

The biospecimen metadata file is also related to the assay metadata file(s) by the ‘specimenID’ value, which appears in both (all) files.  The specimenID variable should be consistent across these two files.  If more than one assay was conducted on the same specimen, the same specimenID should be used throughout. 

Assay

This file contains metadata about each assay for which data is provided.  There are multiple assay metadata templates, since the information collected will vary by assay.  See the ‘Templates and Upload Conventions’ section for links to all available metadata templates.

The assay metadata file is linked to the biospecimen metadata file by the ‘specimenID’ variable, which appears in both files.  The specimenID variable should be consistent across these two files.

Note that not all assays have related assay metadata files.  

Here’s a graphical representation of the relationship between individualID and specimenID across the different metadata files.  IndividualID should be consistent across the individual animal and biospecimen metadata templates.  SpecimenID should be consistent between the biospecimen and assay metadata files.

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