Motivation: Prior to applying genomic predictors to clinical samples, the genomic data must
be properly normalized to ensure that the test set data are comparable to the data upon …

Background Prior to applying genomic predictors to clinical samples, the genomic data must
be properly normalized. The most effective normalization methods depend on the data from …

… least one of the DEGs, we extracted 7695 gene pairs whose REO patterns were significantly
associated with the pathological response states of LARCs receiving nCRT (binomial test, p …

… across our data compendium (58.9%–70.9%; P < 10 −5 ) and are associated with overall
survival in a meta-analysis across datasets (P < 10 −5 ). Current subtypes do not meet …

… We used a nominal P-value threshold of α = 0.05 for each replication study. Of the 1,652
reported GWAS variants, only 726 (44%) replicated (Supplementary Table 3). Using the naive …

… P values indicate significance of RPSb parameter estimate based on χ2 test. Both training
… P values indicate significance of RPS b parameter estimate based on χ 2 test. Both training …

… Log-rank P values for overall association were determined from stratified Cox proportional
hazards models, where dataset was used as a stratification factor to account for variation in …

The progression of cancer is accompanied by the acquisition of stemness features. Many
stemness evaluation methods based on transcriptional profiles have been presented to reveal …

… Moreover, HRD cell lines identified by 24-GPS tended to be sensitive to PARP inhibitors (p
= 6.6E-2 for olaparib; p = 2.6E-3 for niraparib). Compared with the non-HRD group, the HRD …

Background: Modified median and subgroup-specific gene centering are two essential
preprocessing methods to assign breast cancer molecular subtypes by PAM50. We evaluated the …