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Based on database searches, we propose that Ezh1 arose from an Ezh2 gene duplication that has occurred in the common ancestor to elasmobranchs and bony vertebrates.
It should be noted, however, that our systematic review was conducted based on database searches and citations of scientific publications in the English language, introducing a strong bias for certain geographical areas.
Among available data analysis tools, methods based on database searches are most frequently used.
Based on database searches, these glucuronate metabolism genes are most similar to those found in Bacillales, suggesting a Firmicutes origin.
Functional assignments for the ORFs were based on database searches using BLAST [ 70] against UniProt [ 71], NCBI/CDD [ 72], and SMART [ 73] databases.
The model was then improved by adding several new pathways, new reactions and new metabolites to the model based on database searches and literature evidence.
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Based on database search in UCSC Genome Browser, we found that YY1 is restricted at the BCCIP transcriptional start site proximal region in different types of cancer cell lines including A549, HepG2 and HCT116, suggesting the functions of YY1 or INO80/YY1 complex in regulating the expression of BCCIP.
Based on database search (NCBI BLAST), the TA-1 sequence (Fig. 2A) did not show any homology to existing genes.
As quantification experiments often involve repeatedly running similar samples, then also using a package that can expand a spectral library based on database search identification could be beneficial.
MS/MS spectra were identified based on database searching against a human protein database (UniprotKB, released 2010 05) using both SEQUEST (version 27, revision 12) and MS-Align + algorithms [ 26].
Six ORFs of the phiMAV_2 prophage genome can be assigned function based on database search, namely the integrase gene (MAV_1484), response regulator receiver protein (MAV_1485), DNA primase/polymerase (MAV_1486), Y4cG protein (MAV_1493), transposase (MAV_1498) and phage terminase (MAV_1504).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com