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Causal edges are cause-effect relationships between biological entities, for example the increased kinase activity of CDK2 causally increases phosphorylation of RB1 at serine 373.
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The data extant support the conclusion that there is not, if we define 'causative agent' as a single biological entity, for example, a single protein of defined structure.
In Table 1, we list the generic signaling components and their corresponding biological entities for each prototype model.
Reference servers provide the biological reference entity, for example, a nucleotide or peptide sequence.
MMP-26 upregulation is described for different tumor entities, for example, colon cancer and HNSCCs 42.
This fine-grained representation of biological entities allows for highly accurate qualitative modeling of biological mechanisms.
The event extraction for biological entities became promising for information extraction [ 19].
Biological entities can also emit polarised light, for example fluorescent light emitted from chlorophyll [11], or the left and right lanterns of firefly larvae which emit left- and right-circularly polarised light [12].
For example, some biological entities belonging to the flow would be filtered out under a certain cutoff.
To relate physical entities and their molecular interactions to various levels of biological phenomena, for example, cell cycle, apoptosis, organism development, immune response and disease, we need a framework for handling multiple processes in different granularities.
Oxidized derivatives of cholesterol with biological activity, for example, as binding partners for nuclear receptors.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com