obi-bot
commented
14 years ago - priority: 1 --> 7
Original comment by: proccaserra
Closed obi-bot closed 9 months ago
obi-bot
commented
14 years ago Original comment by: proccaserra
obi-bot
commented
14 years ago Some semi-random comments; I don't know too much about these assays: It seems like there should be a parent assay like 'secondary protein structure identification assay' which states that helix/beta strand etc. assignments are made by this assay, and then specific subclasses that distinguish specific chemical/enzymatic agents. Also, I assume that you want to rule out NMR/X-Ray crystallography with this, so should a statement be made that tertiary structure cannot be identified directly by such assays? Finally: Where does the 'single-nucleotide resolution' comes from? Is that really a requirement?
Original comment by: bpeters42
obi-bot
commented
14 years ago i-These are assays where input is either DNA or RNA. Parent class should be indeed a structure determination assay. ii. regarding tertiary structure:: you are right on this -> this defines the information entity output of such assays. We can create queries to return all types of assays distinguishing on the output. iii. single nucleotide resolution: I understand this description as necessary to fully describe that nature of information generated by the assay. Every single position in the input nucleic acid will be probe and will be associated to a numerical value. How to distinguish from assays with lesser granularity, e.g.DNAse I footprinting. How would you do away?
Original comment by: proccaserra
jamesaoverton
commented
9 months ago I think we have this term: http://purl.obolibrary.org/obo/OBI_0000870
an assay which uses chemical or enzymatic agent to determine the secondary structure of nucleic acid sequence by obtaining information about backbone accessiblity and/or base-pairing at individual nucleotide position.
Request/collaboration with RNAO
Reported by: proccaserra
Original Ticket: obi/obi-terms/514