Additional file 7 is a supplementary figure showing that quality control and scaling of microarray probes can be done well with as few as 16 matched RNA-Seq samples.
We have shown that the addition of a supplementary statistical reviewer improves manuscript quality during the editorial process.
The quality of each observational study was independently assessed by two reviewers (TC, AB), as described in Supplementary methods 'Quality assessment' (see Additional file 1).
In addition, the supplementary EORTC quality of life modules, such as QLQ-BR23, QLQ-LC13 and QLQ-BN20, proved very useful instruments for analysing prognostic indicators, provided that other methodological requisites were ensured.
We also analyzed the impact of using a sample of 50%and25%5% in Phase 4 and observe a similar quality (see Supplementary Table S5).
The methylation results obtained by B-SOLANA were then compared to the Illumina Infinium HumanMethylation450 BeadChip (450 k) assay, an established methylation analysis method, as a quality control (Supplementary Fig. 3).
To evaluate the process, a quality assessment instrument (Supplementary Material A) was developed, based on a more general instrument for evaluating the quality of consensus guidelines.
Following the un-mixing of the data, should the resulting data contained 'unsolvable' entries (see supplemental note 1 in Supplementary file 1), a data quality criteria was applied: at least five time points per time trace (0 72 hr) should be solvable, otherwise the protein or transcript was removed from the dataset.
Most of the SNPs included in the GPS were genotyped or had a high imputation quality score (Supplementary Table 1).
The sequencing resulted in >67 million pairs of 50-nt long reads per sample with a mean Phred quality score>35 (Supplementary Table 1).
Regression analyses revealed that increasing dietary proportion of supplementary, high-quality diets resulted in lower MeHg concentrations in carp and predicted 42% of the MeHg variability of carp.
