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Remaining missing data were completely at random.
Remaining missing data were imputed with the group mean for the same assessment point.
Second, similar to our previous paper [2], we imputed remaining missing data with zeros.
Remaining missing data were imputed using Beagle [ 71] via the R package "synbreed" [ 72] with R version 3.0.1 [ 70].
Only 2.7% of the markers for W7984 assembly and 3.2% of the markers for Chinese Spring assembly had more than 20% remaining missing data points per marker.
Markers with missing rate larger than 10% were ruled out and the remaining missing data were imputed using BEAGLE version 3.3.1 with default parameter settings [ 29, 30].
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We used intention to treat analysis via last observation carried forward for the three participants lost to follow-up, with their final recorded outcome being brought forward for the remaining missed data points.
For the remaining cytokines, missing data points were all below the lowest detection limit of the assay.
Receipt of results must be tracked in a manner that allows administrators to identify remaining and missing data, including the reason for missing data (e.g., the subject has passed away or become unreachable).
A non-trivial fraction of markers remained as missing data in each sample due to the stringent scoring criteria of our method.
Some data items remained missing (2.58%) despite follow-up with the HCs and MoH offices, and some data were categorized as outliers (beyond 1.5 times the interquartile, 2.43% of data).
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remaining missing SNPs
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