For studies where full datasets from the primary study are required for the development of ancillary data, this is not practical.
Our study was limited in that variables included were those in the dataset collected for the primary study and did not include variables such as length and severity of disease, experience with treatment, or quality of life measures.
Analysis for association with nephropathy in the validation dataset was performed as for the primary dataset.
The ability to analyze larger datasets was the primary motivation for extending the SAPF dynamic programming approach into BigFoot, and these results show that it is important for existing tools to have the capacity to analyze multiple sequence datasets.
The datasets are generally the same size as for the primary screen datasets but have a smaller minority class.
Fold changes were calculated for the primary root datasets as well as for three RNA-Seq Illumina datasets each, generated from shoot apical meristems of A14 and P28 ([ 13, 14], [EMBL: PRJEB2506]) and two transcriptomic datasets each, obtained from the total RNA of a McIntosh and a Wijcik leaf ([ 10], [EMBL: PRJEB1902]).
The researcher visually parsed each qualifying report to flag key points of data and information, in congruence with the procedure specified for primary data survey and interview texts, interpreting the findings to compare secondary data excerpts against the thematic codes developed for the primary dataset.
We conducted alignments for the primary dataset using ClustalX, then made manual adjustments and excluded ambiguously aligned regions using MacClade 4.0.
As illustrated in Figures 5B (P <0.0001) and 5C (P <0.0001) for the primary dataset, and validated in Figures 5G (P = 0.0012) and 5H (P = 0.0069), this relationship is evident regardless of which of the three independent methods is used to classify tumors as HER2+ or HER2 related.
