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Interactions that were only supported by high throughput data were removed, as well as all protein-RNA interactions, interactions supported only by co-localization or co-fractionation or data from [ 21, 55, 56] were excluded.
Data were removed as per above.
Several small contigs (<1% of the data) were removed as they either represented likely contamination (human and bacteria DNA) based on composition and taxonomic blast hits.
For these, the same amount data were removed as for the EST-like gappy alignments, but the residues to be deleted were either concentrated within alignment columns or randomly distributed throughout the alignment (from here on referred to as column-deleted and random-deleted, respectively).
Similar(56)
The metabolism data was removed as suggested by the editors and reviewers.
One further child's data was removed, as his BMI z-score change from baseline to post-intervention (−0.71) was over 3 SDs greater than the sample mean.
As gene set analysis requires gene annotation information, all data for genes in the array data set that did not contain annotation were removed, as were data for multiple probes representing the same gene.
The data from these patients were removed as well as all duplicate samples so that each sample represented a unique case.
In the group of 698 remaining individuals, there are 42 people with no death time - these are the survivors and their data (6%) are removed as well.
Missing data were removed from the analysis as displayed in Table 2.> -wrap-foot> *This weighted n is derived from a sample size of 2745, of which 2272 (82.8%) were non-rural residents and 473 (17.2%) rural residents.
Loci with low minor allele frequencies, high error rates, evidence of deviation from Hardy-Weinberg Equilibrium or excessive missing data were removed from the data set (as in the HapMap analysis, [ 12]), as were loci that could not be positioned on Assembly Btau_4.0 or were found on the X chromosome.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com