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The GO edge annotated network is shown in Figure 3.
Likewise, Strieth and coauthors have reported that SMF affects the vascular and blood flow [ 30] and Okano and coworkers have investigated the modulation of blood vessels by magnetic fields [ 10, 31- 33]. 1 Annotated network diagrams are provided in Additional file 1.
Besides this example, the complete annotated network and the annotations of all contextual gene sets are given in the Additional file 3. The regions (B) – (E) in Figure 4-I are the examples of network regions where many tissue-specific interactions exist.
Using the annotated network, we filtered interesting annotations to reduce the scope of the study to a few RNAs.
The gateways that turn up when the GO Edge annotation method is applied, including their degree in the annotated network, and their average GO depth (only for immediately adjacent edges).
In all cases, our primary question was to which degree the division of the rhyme words in the network according to their reconstructed vowels would reflect the "natural" division of the networks into rhyme classes as represented in the annotated network of rhymes in the Book of Odes.
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VitisNet uses manually annotated networks in SBML or XML format, enabling the integration of large datasets, streamlining biological functional processing, and improving the understanding of dynamic processes in systems biology experiments.
Since many genes are not or only partially annotated, network-based analysis can be more comprehensive than pathway-based analysis.
Querying by interaction provides a way to find nodes/genes connected to a set of target genes in previously annotated networks.
Here compound-based SARI scoring and annotated molecular network representations are introduced that make it possible to systematically relate global and local SAR features to each other and identify key compounds that are SAR determinants.
Similarly, RegulonDB provides a hand annotated regulatory network for the E. coli genome[ 5].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com