Closer inspection of DmsD indicated that one or more copies of dmsD/ ynfI were located in a dmsABC/ ynfEFGH operon confirming that dmsD was under-represented based on annotation annotators.
Finally, significant probe-sets were collapsed to well-annotated genes, based on annotation provided by Affymetrix, and then subjected to literature analysis through PubMed.
Additional File 5 shows 1,508 UniGenes classified as transcription factors based on annotation by the COG database, accounting for 8.9% of the annotated UniGenes.
The abstracts were selected based on annotation of the abstract in PubMed with at least one of the Medical Subject Heading (MeSH) terms: arsenic or arsenicals.
However, applying a blind filtering based on annotation length alone degrades the evaluation results.
Annotations of the CRAFT corpus were done by biologists based on annotation guidelines that also included a set of linguistic aspects for text span markup.
That's based on annotation, the process of predicting which stretches of DNA contain genes by relying on specialized software to identify gene-like sequences in DNA.
Therefore, we developed new training and evaluation corpus materials for these concepts of interest, based on annotation of full papers.
A set of keywords, composed by sex, egg, ovary, sperm, testis, female, and male were used to predict sex differentially expressed genes based on annotation results.
We then marked all 69 clusters as either supporting (6 clusters) or not supporting (63 clusters) macromolecular synthesis based on annotation content.
Depending on the analysis purpose, the probes were either grouped based on annotation units (such as exons) or transcription units (transcript isoforms).
