Each study requires four metadata files for MODEL-AD – Individual, Biospecimen, Assay, and Manifest files. In order for your metadata to validate successfully. Each file is described below with a list of links to the latest templates.
Graphical representation of the relationship between files.
Here’s a graphical representation of the relationship between |
Individual Animal
This file contains metadata about each individual animal that is part of a study. Each animal will be described in one row with information that is true of the animal as a whole (eg, individualID, genotype, room, litter).
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, its mass, etc.
The biospecimen and individual animal metadata files are linked by the individualID
variable and it should be consistent across these two files. Each individualID
may have more than one associated specimenID
. Not all data will have an associated biospecimen – for instance behavioral or imaging studies may only have records in the individual animal metadata file.
The biospecimen and assay metadata files are linked by the specimenID
and it 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
Each assay metadata file contains information about the assay and there are multiple templates, since the information collected will vary by assay.
The assay metadata and biospecimen metadata files are linked by the specimenID
variable, which appears in both files and it should be consistent across these two files.
Not all assays have related assay metadata templates.
Latest Templates
Individual: template_individual_animal_model-ad.xlsx
Biospecimen: template_biospecimen.xlsx
Assays:
Single-cellRNAseq: https://www.synapse.org/#!Synapse:syn21018360
Nanostring: https://www.synapse.org/#!Synapse:syn21082744
Immunoassay: https://www.synapse.org/#!Synapse:syn22117582
Metabolomics: https://www.synapse.org/#!Synapse:syn24216748
Proteomics: https://www.synapse.org/#!Synapse:syn12973255
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