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COMP ID

Parameter Description	Compound Identifier – A unique identifier assigned to each metabolite or compound in the Metabolon platform, allowing for easy reference across different datasets.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

BIOCHEMICAL

Parameter Description	The metabolite – refers to the specific chemical compound identified and measured in the biological sample
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

SUPER PATHWAY

Parameter Description	The broader metabolic pathway category that the biochemical belongs to, such as carbohydrate, lipid or nucleotide, which encompasses a group of related biochemical processes.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

SUB PATHWAY

Parameter Description	A more specific metabolic sub-pathway under the super pathway, providing finer granularity for the biochemical’s role in metabolism (e.g., glycolysis as a sub-pathway of carbohydrate metabolism)
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

PLATFORM

Parameter Description	The analytical technology or instrument used to measure the metabolite
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

CHEMICAL ID

Parameter Description	A unique identifier for the chemical compound, linked to a public database like PubChem or another chemical repository, to cross-reference compounds across platforms.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

Parameter Description

Retention Index is a parameter used in chromatographic analytical systems to characterize the retention behavior of a compound. It is a standardized value influenced by the chemical structure of the compound and the stationary phase in the chromatographic system. The retention index serves as an identification criterion in gas chromatography, often used in combination with mass spectrometry to provide structural information for unknown peaks

Protocol

The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

MASS

Parameter Description	The molecular mass of the chemical compound, representing the sum of the atomic masses of the atoms within the molecule.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

PUBCHEM

Parameter Description	A unique accession number assigned to compounds in the PubChem database, a widely used open-source repository for chemical information.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

CAS

Parameter Description	Chemical Abstracts Service (CAS) number – A unique numerical identifier assigned to each chemical substance, used to identify chemicals in databases and scientific literature.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

KEGG

Parameter Description	Kyoto Encyclopedia of Genes and Genomes- is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

HMDB

Parameter Description	The Human Metabolome Database (HMDB) identifier – A unique accession number for metabolites in the HMDB, a comprehensive database of small molecule metabolites found in the human body.
Protocol	The Metabolon Inc. platform used for metabolomic analysis in plasma samples. Metabolon protocol uses mass spectrometry (MS) coupled with liquid chromatography (LC-MS) to analyze a broad range of metabolites. Data was normalized to control for batch effects, and metabolites were identified using Metabolon’s proprietary library.

2. Proteomics

SeqId

Parameter Description	SomaLogic sequence identifier
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

SomaId

Parameter Description	Target identifier, of the form SLnnnnnn (8 characters in length)
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

TargetFullName

Parameter Description	Target name curated for consistency with UniProt name
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

Target

Parameter Description	SomaLogic Target Name
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

UniProt

Parameter Description	UniProt identifier(s)
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

EntrezGeneID

Parameter Description	Entrez Gene Identifier(s)
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

EntrezGeneSymbol

Parameter Description	Entrez Gene Symbol names
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

Organism

Parameter Description	Protein Source Organism
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

Units

Parameter Description	Relative Fluorescence Unit
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

Type

Parameter Description	SOMAmer target type
Protocol	The SOMAscan® assay by SomaLogic used for proteomic analsysis in plasma samples.

3. Immunoproteomics

Protein Symbol

Parameter Description	The abbreviated symbol representing the protein, often used as a shorthand in scientific literature to identify a particular protein.
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

Protein Name

Parameter Description	The full name of the protein
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

Uniprot Accession

Parameter Description	The unique identifier assigned to the protein in the UniProt database, consisting of 6 or 10 alphanumerical characters
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

ProteinAtlas

Parameter Description	The Protein Atlas identifier for the protein, linking to data from the Human Protein Atlas. The format is in the Protein Atlas Identifier-Protein Symbol
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

Protein Class

Parameter Description	The classification of the protein based on its biological function or molecular characteristics.
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

GenBank Accession

Parameter Description	The GenBank accession number – a unique identifier assigned to the protein's genetic sequence in the GenBank database.
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

PPI

Parameter Description	The protein-protein interaction of the protein, indicating whether it interacts with other proteins, which is important for understanding its role in cellular processes and pathways.
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

Subcellular Localisation

Parameter Description	The location within the cell where the protein is primarily found, such as nucleus, cytoplasm, or mitochondria, which is important for understanding its function.
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

Transmembrane

Parameter Description	Indicates whether the protein spans the transmembrane
Protocol	Plasma samples were screened against 1600+ antigens using the i-Ome Protein Array, followed by image analysis, data preprocessing, and quality control. Loess normalization and Combat batch correction were applied to adjust for batch effects. Further filtering included negative control filtering (NCF) and PSA (Protein Sample Antigen) filtering.

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