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In addition, SSH techniques are also restricted in terms of limited specificity and difficulties in identifying enriched genes.
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To understand key biological processes involved in the rice response to BPH, we used singular enrichment analysis of agriGO to identify enriched GO terms.
To identify enriched gene ontology terms, a gene set enrichment analysis was carried out using the GSEA (Gene Set Enrichment analysis) platform [ 133].
UniPeak identifies enriched regions where this profile exceeds a fixed threshold of fold enrichment relative to a uniform background distribution.
SEA is designed to identify enriched GO terms in a list of microarray probe sets or gene identifiers.
These gene subsets were subsequently analysed in order to identify enriched functional gene groups.
For REST targets, we identified enriched pathways involved in a diverse set of biological functions.
Gene ontology assignments identified enriched molecular functions in the three distinct groups.
These identities were put into DAVID to identify enriched GO terms [70].
Once a cluster is identified, enriched functions in that cluster are propagated to unannotated members of the cluster [64].
In addition, for REST-CoREST target genes, we identified enriched pathways for Wnt/β-catenin signaling, glutamate receptor signaling, and the ole of BRCA1 in DNA damage response.
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