Difference between revisions of "Markup excerpts"

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m (New page: This is an example of text markup testing the feasibility of linking based on anatomy_name. As you will see, there are a number of problems with the links that are created. [[Image:Mark...)
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Revision as of 18:50, 3 February 2010

This is an example of text markup testing the feasibility of linking based on anatomy_name. As you will see, there are a number of problems with the links that are created.

Markup excerpt 1.jpg



Problems encountered when linking anatomy_names
Anatomy_name Problem Possible solution
“set”, “cell” Real term but also common word Make context specific
“CAN” Real term but also common word Use case sensitivity
“AC”, “FLP” Real term but also different meanings “… (<AC>pAC> < 0.001) and 0.95 (<AC>pAC> < 0.001) in wild-type” AC is not anchor cell “e.g., the FLP recombinase system (Davis et al. 2008).” FLP is not neuron cell Manual correction…context specificity?
“organism”,“organ”, “axis”, “neuronal”, “head”, tail” Too general for the researcher? Remove from list?
“PhaA/B”, "CAN", "VPC" Synonyms not recognized: “CSN” for ciliated sensory neuron, “VPC”s for vulval precursor cells, “PhaA/B” Add to entity list
“neuron” okay, “neurons” not okay Plurality problems Make plural indifferent
“Lateral sense organ”, “P12 ectoblast” not linked Term not on list: "P12" ok but the expression "P12 ectoblast" isn’t, Synonym problem?? Add term? Add synonym? Just omit for linking?
Single letters “D”, “K”, etc Too many false hits: Protein domains “C terminus”, “D domain", Figure panel references “in panel A of Figure 1” Remove single letters from list, or make context specific.