Reads that aligned to the genome were further filtered using stringent criteria to ensure the accuracy of mapping, resulting in 93.2 million reads aligned to reference genome sequence.
Using stringent criteria (see supplementary material), we identified a total of 89 somatic mutations (47 unique genomic positions) among the 41 pairs of sample with adequate DNA and that passed QC, Table S3).
Size adjectives were scored both liberally (i.e., synonyms such as tiny or small were coded as correct) and using stringent criteria such that size adjectives were coded as correct only if they were reproduced verbatim.
Using stringent criteria we defined four major prostate tumors subgroups.
Ubx target genes (1% FDR) were classified into different classes using stringent criteria.
51% (72/140) of Nrl-downregulated genes were also downregulated in Crx-/ using stringent criteria (Fig. 1A).
Using stringent criteria, three-fold changes in expression and p<0.01, we identified 20 up-regulated genes and 135 down-regulated genes (Figure 5A).
Using stringent criteria to define up- and downregulation, a total of 628 genes were identified as dysregulated in at least one of the three mutants (Fig. 1A; Tables S1, S2, S3, S4, S5 and S6).
Specifically, in early stage adenocarcinoma tissue we compared gene expression from current (C) and never (N) smokers and identified the major genes using stringent criteria for gene selection (p<0.001 and fold change >1.5), the Benjamini-Hochberg procedure[2] to calculate the False Discovery Rate (FDR), and Gene Ontology (GO)[3] to classify the gene functional categories.
This was true when using stringent criteria for RCPF (reticulocytes <50,000/uL and haemoglobin <3.2 mMol/L [5 g/dl]) and became even more apparent when the cut-off for reticulocyte count was put at <150,000/uL (equal to 3% of erythrocytes in a non-anaemic child) [20], when 86% of all severely anaemic children fell into the RCPF category.
The prevalence of hyperglycaemia in critically ill patients is considerable; using stringent criteria it approaches 100%.
