The Universal Spectrum Identifier (USI) is a compound identifier that provides an abstract path to refer to a single spectrum generated by a mass spectrometer, and potentially the ion that is thought to have produced it.

Prefix
mzspec
Keywords
data governance data identity and mapping data retrieval lipidomics mass spectrum metabolomics omics data analysis proteomics
Links
Homepage Repository
Contact
Gerhard Mayer   0000-0002-1767-2343   germa
Pattern for Local Unique Identifiers

Local identifiers in Universal Spectrum Identifier should match this regular expression:
^.+$

Example Local Unique Identifier
PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Universal Spectrum Identifier should match this regular expression:
^mzspec:.+$

Example CURIE
mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
MIRIAM Namespace Embedded in LUI
The legacy MIRIAM standard for generating CURIEs with this resource annotates the namespaceEmbeddedInLUI as true. This means that you may see local unique identifiers that include a redundant prefix and delimiter (also known as a banana) and therefore look like a CURIE. For Universal Spectrum Identifier, the banana looks like mzspec:. Therefore, you may see local unique identifiers for this resource that look like mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2 (instead of the canonical form PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2) and CURIEs for this resource that look like mzspec:mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2 (instead of the canonical form mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2). The Bioregistry will automatically strip off the banana when standardizing local unique identifiers and CURIEs.
Publications
2021 Universal Spectrum Identifier for mass spectra
Contributors
Metaregistry Universal Spectrum Identifier

The metaregistry provides mappings between the Bioregistry and other registries. There are 4 mappings to external registries for this resource with 2 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext MZSPEC
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.b549b8
Identifiers.org Identifiers.org logo miriam mzspec
N2T Name-to-Thing logo n2t mzspec
Providers

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2 is used to demonstrate the providers available for Universal Spectrum Identifier. A guide for curating additional providers can be found here.

Name Metaprefix URI
Universal Spectrum Identifier mzspec http://proteomecentral.proteomexchange.org/usi/?usi=mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
Bioregistry bioregistry https://bioregistry.io/mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
Identifiers.org miriam https://identifiers.org/mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
Name-to-Thing n2t https://n2t.net/mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
Extra Providers

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.

Code Name URL
CURATOR_REVIEW Universal Spectrum Identifier through Peptide Atlas https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ShowObservedSpectrum?usi=mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2
ebi PRIDE https://www.ebi.ac.uk/pride/archive/usi?usi=mzspec:PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2