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(2) The small cell size in the interaction analyses might introduce false positives.
These regions might have fairly high LmnB1/Dam ratios, but low LmnB1 and Dam read densities might introduce false positives.
However, a primary concern of identifying chromatin interaction is that fusion sites produced by genomic rearrangement might introduce false positive interactions between two physically joint loci.
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Application of the trim step might even introduce false positives, especially for high-coverage data.
Therefore, we do not use structure information (namely, secondary structure or solvent accessibility) to determine the alignment of disordered regions, because it might introduce more false positives.
For the three monomorphic SNP loci, the minor allele sequence read count frequencies were 0.07, 0.26 and 0.33, indicating that low minor allele sequence read count frequency might be one factor that can introduce false positives in SNP identification.
However, it has to be kept in mind that multiple comparisons might have introduced false significant association (type 1 errors) and that the coefficient of determination was low (≤0.35), which indicates weak associations (Table 3).
All these may introduce false negative results.
A subset of false positives, those which introduce false branching from true positive nodes, are recorded in a separate structure.
Conversely, some structures coincidentally share similar global features and thus introduce false positives.
Lastly, using MeSH indexing can introduce false positive evidence for a given association.
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