This interface allows to build a list of biomolecules (proteins, glycosaminoglycans, matricryptins, complexes...) of interest, using various entry points: one can directly search for biomolecules, or find UniProt keywords or GO terms, publications, or diseases and then retrieve biomolecules annotated with the keywords/GO terms, mentioned in the publications, or associated with the diseases (left-hand side menu).

  Each query will produce "Primary hits" that are most likely relevant, and "Secondary hits" that may also be of interest although their relationship with the query string is less direct. For example the "Publications" query will search for the query string (free text) in publication titles and identifiers (PMIDs), yielding a list of Primary hits, and also in publication abstracts, yielding Secondary hits.

  Two options are available to query several comma-separated terms: return results matching all the terms, or return results matching at least one of the terms. By default, the option is "all terms", use the radio button to change this behavior. Space-separated words are considered as a single term.

  Subsequently, biomolecules related to the retrieved annotations, publications or diseases can be added with a single click to the cart, or examined and added individually. By default the biomolecules are restricted to *human* biomolecules involved in *at least one interaction*, but these restrictions can be relaxed by unclicking the relevant checkboxes.

  Several independent queries can be performed and their results pooled together to iteratively construct a list of biomolecules. "Show queries history" (in the pink "Current cart" frame) can be used to visualize the list of queries performed along with the biomolecules that they added to the cart, and to delete some queries if needed.

  Finally, the interaction network comprising all selected biomolecules and their direct partners can be constructed and analyzed in the MatrixDB Network Navigator by clicking on "Build interaction network" in the pink "Current cart" frame.

This is an experimental interface, any feedback is welcome!

Enter free text, biomolecule identifier(s), name(s) or gene(s) separated by comma. Words separated by space will be taken as a single term.
When searching with biomolecule identifiers: MatrixDB identifier, UniProt Accession numbers, gene names, Complex portal identifiers, ChEBI identifiers and GlyTouCan identifiers are accepted.

All terms needed

At least one term needed

Human biomolecules only

Biomolecules involved in at least one interaction

This query will display two results tables:

• Primary Hits: Query found in the identifier or name of the biomolecule or gene
• Secondary Hits: Query found in various descriptive fields for the biomolecule (molecular description, function, subcellular location, tissue specificity, protein domain)

Examples: P28300 - CPX-1714 - P28300,CPX-1714 (either one) - Heparan sulfate - Brain protein - COL1A1 - Alzheimer

Enter free text, keyword identifier and / or GO identifier separated by comma. Words separated by space will be taken as a single term.

All terms needed

At least one term needed

Human biomolecules only

Biomolecules involved in at least one interaction

This query will display two results tables:

• Primary Hits: Query found in annotation identifier or name
• Secondary Hits: Query found in annotation description

Examples: Angiogenesis - Structural constituent - Aging - Osteogenesis - KW-0272 - GO:0043062

Enter free text and / or PMID separated by comma.

All terms needed

At least one term needed

Human biomolecules only

Biomolecules involved in at least one interaction

This query will display two results tables:

• Primary Hits: Query found in PMID or publication title
• Secondary Hits: Query found in publication abstract

Examples: Matricellular protein, Down regulation, Glycosaminoglycan, Basement membrane, 15181153

Enter free text, OMIM identifier(s) and / or uniprot disease identifier(s) separated by comma. Words separated by space will be taken as a single term.

All terms needed

At least one term needed

Human biomolecules only

Biomolecules involved in at least one interaction

This query will display two results tables:

• Primary Hits: Query found in disease identifier or name
• Secondary Hits: Query found in disease description

Examples: Ehlers-Danlos - Cerebral vessels - Fibrosis - Neonatal - 226650 (OMIM) - DI-00085 (UniProt) - Kidney,Liver (both) - Kidney,Liver (at least one)