HuBMAP Antibody Validation Report CSV Structure

With each submission of AVR documents associated header/metadata information must be include for each AVR document. This information is provided as a .csv file. It is recommended to start with the blank (header only) template csv file, use Excel or other spreadsheet to enter the data, then export as a comma separated value (csv) file. An example example AVR csv file is also available. All columns in the csv file are required, with the definitons of the columns here:

csv column	description
protocols_io_doi	All validation pipelines need an accompanying protocol on protocols.io. If the validation procedure is the same for all antibodies your which lab tests, then a single protocol can be used. If validation procedures differ, then different methods will need different validation protocols.
uniprot_accession_number	This can typically be found on the vendor’s website, but can also be found by searching UniProt.org directly. Please note that different species have different UniProt accession numbers for the same protein. If your data was acquired using human tissue, be sure you are choosing the UniProt accession for the human protein.
target_name	This is the name of the protein that the antibody is targeting. Please list the UniProt protein name. This may be different than the common name for the protein.
rrid	This can usually be found on the vendor’s website, but can also be found by searching at https://scicrunch.org/resources/Antibodies/search or htps://antibodyregistry.org. If there is no RRID, you can create one here: https://scicrunch.org/resources/about/resource.
antibody_name	This is the name of the antibody from the vendor’s website.
host_organism	This is the species that was used to generate the antibody (e.g. mouse, rabbit, etc).
clonality	This will be either Monoclonal or Polyclonal.
vendor	This is the company that sells the antibody.
catalog_number	This is pretty self-explanatory.
lot_number	This is the lot number for the antibody that was validated.
recombinant	Simple Yes or No if the antibody was recombinant.
organ_or_tissue	This is the tissue that was used to acquire the validation data. This should be the same tissue that was used in the downstream assay.
hubmap_platform	This is the downstream assay that was used (e.g. CODEX, MIBI, etc).
submitter_orciid	This is needed for whomever is submitting the validation data. This will be used to differentiate the same antibodies being tested across different groups.
avr_filename	The name of the corresponding AVR document in PDF format that this row of metadata is associated with. This name must match the file uploaded in the Antibody PDF section of the AVR upload screen during submission. An example AVR document can be found here.