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If the actor was mentioned within the ARG1 part and the target in the ARG0 part or if any additional PAS existed for this sentence wrongly connecting the entities annotated within this sentence by a biological meaningful verb (e.g. "activates", "binds", "interacts" etc)., this observation was counted as false positive (FP).
A second POX (CYC11T7_B02) homologue was regulated similarly, although not annotated within this GO category.
One of the sorghum genes annotated within this region is ABCB1, which encodes a P-glycoprotein involved in auxin transport.
Besides the CYP19, eight other ORFs are annotated within this DNA sequence, corresponding to the following genes: AP4E1, FLJ41287, COL, DMXL2, SCGIII, MGC35274, TMOD2, and TMOD3 (figure 2).
A search of genes potentially involved in fruit skin organization or active on peel related molecules biosynthesis was performed and among the 58 genes annotated within this region, the gene model MDP0000200335 was identified as a good candidate for russeting control.
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Also, a pectinacetylesterase (CYC14T7_B05) as a fourth enzyme within this group showed a similar expression pattern, yet this enzyme was not annotated within the "extracellular region" GO category.
Genes were annotated on all of the potato BACs using a semi-automated annotation pipeline; a total of 287 genes were annotated within the 18 potato BACs.
True Positives (TP), i.e. the semi-synthetic skipped genes previously described, are not affected by this filter since their exon-level probe sets are not annotated within the cross-hybridizing probe sets.
Using the same annotation pipeline, 221 genes (139 known/putative, 17 expressed, and 65 hypothetical genes) were annotated within the tomato BACs/contigs.
f Six putative genes were annotated within the 28.5 kb region according to MSU Rice Genome Annotation Release 6.1.
We also added all false-positive terms, i.e., terms indexed by our system but not annotated within the corpus (e.g., "peptide" and "carcinogen"), to our stop-word list, which further improved performance.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com