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Hits against the database are assigned to the respective pathways.
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1509 human TF-encoding genes from the TFclass database were assigned to superfamily and class groups based upon their DNA-binding domain.
For each significant bound-region, surrounding target genes (FlyBase genes from UCSC database) were assigned to the bound-region.
The average signal of K36me3 within the coordinates provided by the database was assigned to each replication origin.
Each protein in the database is assigned to one or more COGs, with a total of 1569 COGs assigned to the 1433 ORFs on the array.
All of the sequences that had a hit against the SwissProt database were assigned to a protein family based on the Pfam database (data not shown) and based on these were assigned to a Gene Ontology (GO) category (GO database release July , 2009 [31] (Figure 5).
Each protein included in the database was assigned to an Ambler class and a specific family.
Genes which lacked biological process annotation in the database were assigned to a group through a brief literature review.
To assess the validity and integrity of the transcriptome sequence, 25,739 unigenes annotated in Nr database were assigned to the KOG database to classify potential functions.
All other samples in the database were assigned to the 'filter-group', and we allowed at most one of the 'filter-group' samples to carry the mutation.
Out of the 79,918 identified unigenes, 11,155 (13.96%) with significant matches in the database were assigned to 5 main categories that included 265 KEGG pathways.
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