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Finally we showed that the components of the APC/C and its main targets can be good phylogenetic markers to complement those used so far (mostly proteins involved in transcription and translation).
We uncovered that many proteins previously described as definitive or putative PARP1 substrates (i.e., mostly proteins involved in the early phases of the DDR) were present in both the first and second eluate, suggesting that they are present in the same complex with TIMELESS and PARP1.
We defined at least two domains for every chain in the multi-domain proteins class (fig 2a by structure), with the number of domains defined per chain falling gradually from 2 to 6. Manual definitions also split 13 chains into 7 or more domains, and are mostly proteins involved in replication and transcription, notably polymerases.
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In contrast, genotype affected less markedly metabolism (21%), whereas structural proteins (25%; mostly different types of collagen) and proteins involved in the regulation of transcription (21%) predominated (Table 2).
The [CAUAGA] motif of late G1-upregulated clusters #3 and #6 (Fig. 6), homologous to the well-characterized canonical Cycling Sequence (CS) of kinetoplastids [12], is known to be recognized by the CSBP II complex that mediates regulation of a cohort of transcripts that mostly encode proteins involved in DNA metabolism.
All four species share 65 immune protein orthologs which mostly comprise proteins involved in core immune signalling pathways, PRRs or serine proteases (Additional file 6: Table S4).
The TIR domain mediates protein-protein interactions and belongs to the STIR superfamily that includes mostly eukaryotic proteins involved in diverse signaling pathways as well as a variety of poorly characterized multidomain proteins from bacteria and archaea with large genomes (that also have been implicated in transcription regulation and signaling [ 55- 57]).
The first subset of ortholog groups, called here informational, consisted mostly of proteins associated with information processing (i.e. translation, transcription, DNA replication) and the second, the non-informational ortholog groups, mostly comprised of proteins involved in metabolic pathways.
Chemotherapy mostly increased the expression of proteins involved in antioxidant response, mainly in taxol-treated fibroblasts.
At the pupal stage, approximately 400 genes were identified mostly encoding structural proteins and proteins involved in the synthesis of eye pigments.
Chaperones were mostly non-oscillating upregulated, as were proteins involved in defense against oxidative stress and signal transduction.
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CEO of Professional Science Editing for Scientists @ prosciediting.com