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Citrullinated peptides were manually inspected when the citrullinated residue produced a missed cleavage to exclude false positive assignment of citrullination (that is deamidation or the selection of the first isotopic peak as precursor mass).
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Finally, all structures were manually inspected and, when needed, corrected.
Differences between 454 and solexa contigs were manually inspected and corrected when necessary.
All signals were later manually inspected and corrected when activation was incorrectly detected.
Nevertheless, when manually inspected, these variants could safely be identified.
Metadata and bibliographic information, when available, were manually inspected to assign putative functional classification of the cluster.
When necessary, we manually inspected peptides shorter than 150 a.a. to select and include appropriate ones in the phylogenetic analyses.
Finally, the data were manually inspected in order to resolve conflicts when a signature produced a match with two different genes.
The metadata available for the first five hits, as well as bibliographic information when available, were manually inspected to assign the putative functional classification of the cluster.
The patterns were manually inspected and corrected to remove errors and wrongly written characters.
The raw and preprocessed images were manually inspected for artefacts and image quality.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com