TraitMech

TraitMech › UPPER

material entity

METPO:1000186 · CLASS · REVIEWED

An object or portion of a substance or mixture of substances that consists of matter

Material entity upper-class context

DOI-backed upper-ontology context graph linking material entities to qualities, observations, and processes without asserting a taxon-specific microbial mechanism.

Material entity upper-class context Interactive directed graph showing evidence-backed causal relationships for material entity.

Edge evidence

  • material entity can bear quality

    Material entities provide bearers for qualities used in trait descriptions.

    • DOI:10.1186/gb-2010-11-1-r2 entity that is observed to be affected Supports the entity-quality pattern in phenotype representation.
  • observation can be about material entity

    Observations and investigation outputs can be about material entities and their qualities.

    • DOI:10.1371/journal.pone.0154556 results of a study can be about any material entity Supports material entities as subjects of biomedical investigation data.
  • material entity can participate in biological process biolink:participates_in

    Material entities can participate in biological processes, but this upper record has no direct TraitMech children.

    • DOI:10.3233/AO-220262 support information integration, retrieval, and analysis Supports BFO as the upper ontology used to place material entities in scientific-domain representations.

Provenance

Source
METPO (2025-11-25)
Author
Anthea Guo
Definition source
DOI:10.3233/AO-220262

Children (3)

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000186 [+0.971, -0.795, +0.103, +1.493, …]

512-dim DeepWalkSkipGramEnsmallen embedding from kg-microbe (2026-04-25).

Nearest neighbors in embedding space

Top-8 cosine-similar METPO traits from the 2026-04-25 deepwalk (512-D).

Curation history

  1. · SEEDED_FROM_METPO · seed_from_metpo

    imported from data/raw/metpo.owl (CLASS)

  2. · CURATED_UPPER_CONTEXT · codex

    Reviewed material entity as an upper classifier and added a DOI-backed context graph; no direct TraitMech children were present.

  3. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (biolink:participates_in×1).