Even though the Gene Ontology did not demonstrate any significant transgenerational effects on GO functional groups, it should be remembered that only relatively few genes were GO annotated.
Based on GO functional annotation and pathway enrichment analysis, some of these genes encoded transcription factors, protein kinases, and other regulatory proteins.
The sets used were based on GO functional annotation for the complete cell cycle or genes found specifically expressed in a particular cell cycle phase, reported by both Bar-Joseph et al. [ 7] and Whitfield et al. [ 8].
In addition, we compared embryo-associated genes against all predicted genes from the parental genomes 93-111 and PA64s) based on GO functional classification, and observed the enrichment of genes in several categories, such as response to stimulus and stress in the category Biological Processes.
On the basis of GO functional categories transcripts were assorted into several groups.
On-going functional studies aim to elucidate the biological role of these findings [ Breslow et al., 2010; Cantero-Recasens et al., 2010].
Here, we describe TRACER (http://tracerdatabase.embl.de), a resource that centralizes information from a large on-going functional exploration of the mouse genome with different transposon-associated regulatory sensors.
The primary objective of our study was to develop a black spruce transcriptomic resource to facilitate on-going functional genomics projects related to growth and adaptation to climate change.
Sets used were based on either GO functional annotation or on genes found specifically expressed in a particular cell cycle phase by both Bar-Joseph et al. [ 7] and Whitfield et al. [ 8], but only used for calculation if they contained at least 4 genes.
Based on the GO functional classification, almost all of the up-regulated gene sets were involved in processes of carbohydrate metabolism, oxidation reduction and catabolism.
We thus created a library of 539 essential proteins based on their GO functional and localization annotations [60], reasoning that these would likely still exhibit biochemical diversity characteristic of the protein population as a whole.
