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Differences in stringency of data screening parameters, the taxonomic composition of databases used for the comparative analysis, and methods of phylogenetic analyses can significantly affect the outcome of the study.
Nevertheless, it is known that some biases exist in the composition of databases (which are rich in sequences from common, cultivable and easily accessible organisms), but it is uncertain how big this bias is and how it can influence the analysis of real data, that is, how accurately the databases are describing the global diversity.
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However, it is not clear how the underlying residue composition of database sequences affects the statistics of alignment scores.
In this section, we outline the algorithm used to compute the composition of database sequences and to apply composition-based statistics in TBLASTN.
This highlights the well-known bias in taxonomic composition of existing databases and the value of ongoing gene sequencing in underrepresented metazoan taxa for public sequence databases.
Visualization of large molecular data sets using the Molecule Cloud approach allows scientists to get information about the composition of molecular databases and their most frequent structural features easily.
In order to set both the optimal parameterization and use "rules" for this ANN, we perform an extensive sensitivity analysis on the optimization of (1) the internal structure and training algorithm of the ANN and (2) the "rules" used for choosing both the relative size and the composition of the databases (DBs) used for training and inferring with the ANN.
In both cases, artifacts in previous estimates of the rate of gene flow between Archaea and Bacteria were likely due to incomplete and biased composition of available databases and application of simple BLAST-based procedures that were not sufficiently reliable given these biases.
Another relevant difference was the composition of the database: while in previous evaluations the databases were composed of a unique BN media (TV in Albayzín-2010 Albayzín-2010alan [9] or radio in Albayzín-2012 [10] mostly in Spanish), the Albayzín-2014 database was a Catalantion and fusion of three different databases with TV, radio, and noise recordings.
Figure 2a shows the composition of the database by mode of administration and drugs status information.
The principal difference between their experiments and ours is the composition of the database that was used for their experiments.
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