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DEGs were manually investigated using the Aspergillus Genome Database, http://www.aspergillusgenome.org/ (ASPGD).
Three putative deletions fell outside of this confidence interval and were manually investigated using the CoGe toolkit.
We evaluated the quality of one-to-one orthology predictions using a data set of 107 C. elegans genes for which orthology relationships were manually investigated using alternative versions of P. pacificus gene predictions, TBLASTN searches to complement incomplete gene models, and subsequent phylogenetic analysis including all potential paralogous sequences.
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Dynamic parameters were investigated using a fluorescence microscope (Nikon Eclipse 80i, Tokyo, Japan) and measured manually using a Weibel grid.
Non-linearity was investigated using quadratic terms.
Metabolic stability was investigated using radio-HPLC.
Population structure was also investigated using PARTITION [31].
After processing in Guineu all peaks were manually investigated by using the average spectra information, obtained from Guineu, in NIST MS Search 2.0 to search against the same libraries as previously used.
Gene products not annotated in the GeneSpring program were manually investigated individually using Unigene on the NCBI website (http://www.ncbi.nlm.nih.gov/sites/entrez) to determine whether the gene had been ascribed a particular function or found to be part of a known metabolic pathway.
We manually investigated the 167 risk loci using the following standards to predict CNVs.
A security analyst on a daily basis (during week days) manually investigated the latest detected incidents.
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