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We discuss genes and biological processes that appear to be common to salamander and anuran metamorphosis, and also highlight clear transcriptional differences.
Analysis of the differentially-expressed gene sets using gene ontology (GO) classifications identified several biological processes that appear to be regulated by Alethea or salinity (Table 1).
DOI: http://dx.doi.org/10.7554/eLife.02286.008 > -wrap-foot>> -wrAlthough Althonly only 33% of the up-regulated genes have a functional annotation, it is interesting that the O2 response in Chlamydomonas involves genes and biological processes that appear to be distinct from those that respond specifically to O2 in Arabidopsis (op den Camp et al., 2003).
In both Bulgarian and Serbian patients major biological processes that appear to be affected are cell adhesion and cytoskeleton organization/regulation of cell cycle - 14.8% in both Bulgarians and Serbians; oncogenesis and metastasis - 8.8% (SER) and 7.41% (BG); immune response – 6.4% (SER) and 14.8% (BG) and transcriptional regulation - 8% (SER) and 14.8% (BG).
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they're not the only biological processes that seem to vary with the seasons. .
More generally, many links connect processes that appear unrelated to each other when only the GO hierarchy is considered, even though the connection fits well with current biological knowledge.
Thus, while our experimental approach was based on whole embryo RNA, we were able to identify several altered biological processes that would appear to be tissue-specific.
Specifically, we show that many biological processes that do not appear to be information processing, such as synthesis of macromolecules, structural assembly, transport, disassembly, and degradation of molecules, actually do perform computation when viewed from the RAM perspective.
In both the complete list and the "after exposure" list, the biological processes that are represented appear to exactly mimic those that are seen during the exposure, albeit to a lesser extent (See Additional Files 2, 3, 4).
These analyses revealed several biological processes that have previously been found associated with age and appeared in both our chronological and pathology-related aging analyses.
Although they participate in diverse biological processes that differ in different organisms and tissues/organs, genes involved in metabolism appear to be circadianly regulated throughout the phylogeny.
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