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Data mining and functional assays have been very helpful in identifying putative effectors from the P. infestans genome sequence [10], [11].
At least four technologies have been extensively used for gene mining and functional genomics.
However, extensive ABC gene mining and functional characterization have not yet been reported in copepods.
JH participated in the study design, performed the literature mining and functional enrichment analyses, and drafted the manuscript.
We also revealed an entire set of previously unreported novel genes for further mining and functional validation.
For data mining and functional analyses, DEGs satisfied a stringent false discovery rate (FDR) of 5% with ≥ 1.3 or ≤ −1.3 fold change (FC).
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In addition, a freely accessible web toolkit "coexpression pattern mining and GO functional analysis" (COGO) was developed.
To supplement the gene list from these publications, we mined Drosophila structural and functional gene annotations from public databases.
This annotation data, combined with expression data for each cluster will allow data mining and help initiate functional studies in the rose.
Bioinformatic mining of the data and functional confirmation remains an important challenge and is one of the exciting areas of progress.
In this study, expressed sequence tag simple sequence repeat (EST-SSR) markers were developed using transcriptome mining for future genetic and functional studies.
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