Presumably, many of the unmatched Douglas-fir genes would fall into these GO slim classes had we used a less stringent E-value.
Compared to Douglas-fir, many more Arabidopsis sequences fell into the "Unknown cellular components" and "Unknown molecular functions" classes, suggesting that these GO slim classes contain Arabidopsis genes that are more likely to be absent from Douglas-fir or highly diverged (i.e., resulting in no GO slim assignment for Douglas-fir).
The percentages of annotated P. contorta sequences assigned to GO Slim classes generally mirrored those of A. thaliana genes (http://www.arabidopsis.org; Fig. 5), reflecting a similar distribution of genes in different functional categories, and further highlighting that a large diversity of P. contorta transcripts is represented by these sequences.
Nevertheless, there is clearly signal in each of the methods described as demonstrated by the positive results produced in the analyses of Translin (Neduva et al., 2005), EH-1 (Copley, 2005) and KENBox (Michael et al., 2008) SLiM classes, as well as, the identification of kinases associated with particular phosphorylation sites by NetworKin (Linding et al., 2007).
The final percentage is difficult to estimate as the total number of SLiM classes is unknown but taking into consideration that there are over 13 000 globular domain classes annotated in Pfam, the potential influence of SLiM-mediated interactions is prodigious.
The course offerings were slim and class enrollments were down year after year, students majoring in Afro Am were also down.
The SLiM functional classes used in iELM were extracted, in the form of a regular expression, from the ELM database (2011-03).
Distribution of predicted protein sequences from BES to high-level GO terms suggested the presence of a broad range of categories from all GO-slim functional classes.
To the degree that the hefty celeb becomes an unwitting champion of her weight class, slimming reads as treachery.
