Table 2 Definitions and examples of class-level relations
Relations and relata | Definitions | Examples |
|---|---|---|
C is_a C1; Cs and C1s are continuants | Every C at any time is at the same time a C1 | myelin is_a lipoprotein |
serotonin is_a biogenic amine | ||
mitochondrion is_a membranous cytoplasmic organelle | ||
protein kinase is_a kinase | ||
DNA is_a nucleic acid | ||
P is_a P1; Ps and P1s are processes | Every P is a P1 | endomitosos is_a DNA replication |
catabolic process is_a metabolic process | ||
photosynthesis is_a physiological process | ||
gonad development is_a organogenesis | ||
intracellular signaling cascade is_a signal transduction | ||
C part_of C1; Cs and C1s are continuants | Every C at any time is part of some C1 at the same time | mitochondrial matrix part_of mitochondrion |
microtubule part_of cytoskeleton | ||
nuclear pore complex part_of nuclear membrane | ||
nucleoplasm part_of nucleus | ||
promotor part_of gene | ||
P part_of P1; Ps and P1s are processes | Every P is part of some P1 | gastrulation part_of embryonic development |
cystoblast cell division part_of germ cell development | ||
cytokinesis part_of cell proliferation | ||
transcription part_of gene expression | ||
neurotransmitter release part_of synaptic transmission | ||
C located_in C1; Cs and C1s are continuants | Every C at any given time occupies a spatial region which is part of the region occupied by some C1 at the same time | 66s pre-ribosome located_in nucleolus |
intron located_in gene | ||
nucleolus located_in nucleus | ||
membrane receptor located_in cell membrane | ||
chlorophyll located_in thylakoid | ||
C contained_in C1; Cs are material continuants, C1s are immaterial continuants (holes, cavities) | Every C at any given time is located in but shares no parts in common with some C1 at the same time | thoracic aorta contained_in posterior mediastinal cavity |
cytosol contained_in cell compartment space | ||
thylakoid contained_in chloroplast membrane | ||
synaptic vesicle contained_in neuron | ||
C adjacent_to C1; Cs and C1s are continuants | Every C at any time is proximate to some C1 at the same time | Golgi apparatus adjacent_to endoplasmic reticulum |
intron adjacent_to exon | ||
cell wall adjacent_to cytoplasm | ||
periplasm adjacent_to plasma membrane | ||
presynaptic membrane adjacent_to synaptic cleft | ||
C transformation_of C1; Cs and C1s are material continuants | Every C at any time is identical with some C1 at some earlier time | facultative heterochromatin transformation_of euchromatin |
mature mRNA transformation_of pre-mRNA | ||
hemosiderin transformation_of hemoglobin | ||
red blood cell transformation_of reticulocyte | ||
fetus transformation_of embryo | ||
C derives_from C1; Cs and C1s are material continuants | Every C is such that in the first moment of its existence it occupies a spatial region which overlaps the spatial region occupied by some C1 in the last moment of its existence | plasma cell derives_from B lymphocyte |
fatty acid derives_from triglyceride | ||
triple oxygen molecule derives_from oxygen molecule | ||
Barr body derives_from X-chromosome | ||
mammal derives_from gamete | ||
P preceded_by P1; Ps and P1s are processes | Every P is such that there is some earlier P1 | translation preceded_by transcription |
meiosis preceded_by chromosome duplication | ||
cytokinesis preceded_by DNA replication | ||
apoptotic cell death preceded_by nuclear chromatin degradation | ||
digestion preceded_by ingestion | ||
P has_participant C; Ps are processes, Cs are continuants | Every P involves some C as participant | mitochondrial acetylCoA formation has_participant pyruvate dehydrogenase complex |
translation has_participant amino acid | ||
photosynthesis has_participant chlorophyll | ||
apoptosis has_participant cell | ||
cell division has_participant chromosome | ||
P has_agent C; Ps are processes, Cs are material continuants | Every P involves some C as agent (the C is involved in and is causally responsible for the P) | gene expression has_agent RNA polymerase |
signal transduction has_agent receptor | ||
pathogenesis has_agent pathogen | ||
transcription has_agent RNA polymerase | ||
translation has_agent ribosome |