Questions tagged [sbol]

Used for questions regarding the "Synthetic Biology Open Language", which can be used to describe genetic circuits, function, experimental data, etc.

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Can SBOL encode DNA Assembly linkers?

Where in an SBOL file could you specify the linkers that would be placed as prefixes / suffixes between parts for assembly? Lets say you have a final construct of your design and want to assemble the ...
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0answers
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How do you represent small molecules in SBOL?

In SBOL, how do you represent small molecules like arabinose or chloramphenicol? There's a type for saying a component is a small molecule, but they don't really have sequences like DNA or proteins ...
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2answers
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Why does SBOL have both Component and ComponentDefinition?

What is the point of having both a Component and a ComponentDefinition in SBOL? Shouldn't you be able to link straight from one component to its sub-components? The same question goes for Module and ...
4
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1answer
34 views

Does SBOL require representing intermediate products like mRNA?

Do I need to include intermediate gene products like mRNA in order to express a gene regulatory relationship in SBOL? For example, let's say that I'm representing transcriptional regulation of the ...
3
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1answer
25 views

In SBOL, when should I annotate a DNA sequence vs. making sub-components?

When representing a DNA sequence in SBOL as a ComponentDefinition, you can mark things like promoters and coding sequences in two different ways: either as a ...