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LCA is one of the most commonly used algorithms in phylogenetic placement; it implements steps to address this specific issue of taxonomies coming from different database sources.
There is no phenomenal change (see Additional file 1: Figures S2, S3a, S3b, S3c and S3d) when the analysis is done on different PINs from different database sources.
Two replication studies using different UK PCDs reported closely corresponding results using different database sources; 15 17 however, these replications were conducted by research groups instrumental in the creation and maintenance of the comparator PCD and hence, lacked independence.
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The analysis revealed some interesting (but expected) differences between different pathway database sources (see the Results section).
The software is configurable to adjust for different databases and data sources, and can accept combinations of different data sources (e.g., joins of multiple tables).
One possible solution of this problem is to develop a decision support system (DSS) to help retrieve data from different databases and information sources and analyze them in order to provide useful and explicit information.
It should be noted that if the same erroneous sequence was deposited multiple times in the same or different databases, several protein IDs and database sources are listed.
Outline of the CrossCheck reference database sources.
All these trees were generated by applying different methodologies and using different databases, data sets, and sources of phylogenetic signals (supplementary table S1, Supplementary Material online), which makes the search for a consensus species tree especially meaningful.
It is therefore necessary to rely on the experimental detection method terms to determine whether source records from different databases, with the same interactants and source publication, represent the evidence for the same interaction.
As explained in the previous section, alternative splicing data are obtained from different databases and come from different sources -e.g. literature, processing of ESTs- therefore they will have a different error attached to them.
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CEO of Professional Science Editing for Scientists @ prosciediting.com