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This past weekend, Twitter held a Annotations Hackfest at their headquarters.
a Annotations were obtained from Ingenuity Pathway Analysis (Qiagen Inc .. a Number of optimal ceRNA pairs/ceRNAs with significant positive correlation coefficients in corresponding cancer dataset, b Coefficients of variation of number of core ceRNA pairs/ceRNAs among four cancer datasets.
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Among those with three Pfam-A annotations, G-protein superfamily becomes the most prominent while Ig superfamily again leads the group with four Pfam-A annotations.
Table 5 lists the top 10, most frequent Pfam-A families/clans in human protein sequences containing 1 5 Pfam-A annotations.
To better understand the functional versatility of human domains, we have analyzed the frequency of individual functional families in proteins with increasing order of functionalities i.e., proteins containing 1 to 5 different Pfam-A annotations.
The most abundant combination in the proteins with two Pfam-A annotations is the zinc-finger (zf-C2H2) family with Kruppel-associated box (KRAB), which are mainly involved in transcriptional regulation [ 35, 36].
We use the gene term annotation file of [ 16] (downloaded 29.2.2008), which extends the standard GO annotations to include all "part-of" and "is-a" annotations to give more comprehensive annotation data.
UniProt annotations for these proteins do not show Marek's disease glycoprotein-A annotation.
Out of these, about 44% have only one Pfam-A annotation, ~ 36% have 2 5 annotations, ~ 5% have 6 10 annotations while a surprising 15% have more than 10 annotations.
Of the 336 genes that were reviewed, ∼77% required an update to the annotation set, ranging from a refinement of an annotation, removal of an annotation or an addition of a new annotation.
For example, let (p) be a literal and (mu ) an annotation, then (p:mu ) is called an annotated literal.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com