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The association can be either a direct link or sometimes an indirect link derived through its link first to an NCBI Gene database entry then to PubMed database entries.
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The first option "PubMed Citations" is for Entrez links derived from cross-references to PubMed articles that data contributors provided to PubChem.
For this assessment we used only their links derived from homology data, which uses a scoring scheme based on E-values obtained from the Smith-Waterman algorithm with a reasonably strict cut-off score to ensure high quality matches [28].
The computational approach used in this study was based on functional links derived from co-expression and co-regulation profiles.
Our method extends a given network with links derived from the data via various inference methods, and uses information on physical interactions of proteins to guide and validate the integration of links.
To test whether potentially circular logic derived from literature-based network information resulted in the overestimation of EcoliNet's performance, we also assessed EcoliNet in the absence of links derived from only CCs (EcoliNet-noCC).
Then, the size of the largest component in the set of suprathreshold links derived from each K permutation is stored, thus providing an empirical estimation of the null distribution of the maximal component size.
Inbreeding should affect all loci equally and genetic drift should affect loci randomly and not show any linkage disequilibrium between adjacent loci, but we hypothesise that selection will drive linked derived alleles to high frequency in one breed but not the other.
The Reciprocative Dynamic Linking derives its base from contemporary theories of cognition such as distributed and embodied cognition (Glenberg et al. 2013).
Further support for such a link derives from the frequency of BRAF and NRAS mutations, and similarity of clinical behaviour between these melanoma types.
Two types of unipartite links were derived from the M-P link map: molecule-molecule links and pathway-pathway links.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com