All significant genes in FL regressions using the DA method. Mean.Exp.Case: Normalized mean expression value in cases, Mean.Exp.Cont: Normalized mean expression value in controls, Disp: Dispersion, NB, CL, BL, FL: P-values from negative binomial regression, classical logistic regression, Bayes logistic regression, Firth’s logistic regression. (XLS 1013 kb
Table S1. This table summarizes the number of false positives claimed in differential expression ana...
Estimated relative abundance for Rollins et al. data (by slQUASI method). This table contains the re...
Benchmark performance for Williams et al. data. This table contains the precision and recall estimat...
Type-I error rates of the NB regression from the balanced design with N D=1 = 10 and μ = 1000. Disp...
Venn diagram of HD analysis results using DA method. Each colored circle represents a different regr...
Type-I error rates of regression methods from the balanced design. Type-I error rates of the Negativ...
Q-Q plots of the HD Analyses. Figure S7 exhibits the Q-Q plots from the HD analysis adjusting for ag...
Type-I error rates from DESeq2 analysis with the DA method using the permuted HD data. Figure S4 con...
Supplemental figures. This file contains all supplemental figures referenced in this document. (PDF ...
Table S2. This table compares the p values and q values of differential expression analysis by edgeR...
Estimated relative abundance for Rollins et al. data (by slFMD method). This table contains the rela...
Table S3. This table compares the sensitivity (true-positive rate) achieved by different normalizati...
Simulated data benchmark performance. This table contains the precision and recall estimates for sev...
The details for 140 and 123 differentially expressed orthologous transcripts detected by the Median ...
Table S1. The sensitivity and specificity of GRIPT with CADD and other tests under the AR and AD mod...
Table S1. This table summarizes the number of false positives claimed in differential expression ana...
Estimated relative abundance for Rollins et al. data (by slQUASI method). This table contains the re...
Benchmark performance for Williams et al. data. This table contains the precision and recall estimat...
Type-I error rates of the NB regression from the balanced design with N D=1 = 10 and μ = 1000. Disp...
Venn diagram of HD analysis results using DA method. Each colored circle represents a different regr...
Type-I error rates of regression methods from the balanced design. Type-I error rates of the Negativ...
Q-Q plots of the HD Analyses. Figure S7 exhibits the Q-Q plots from the HD analysis adjusting for ag...
Type-I error rates from DESeq2 analysis with the DA method using the permuted HD data. Figure S4 con...
Supplemental figures. This file contains all supplemental figures referenced in this document. (PDF ...
Table S2. This table compares the p values and q values of differential expression analysis by edgeR...
Estimated relative abundance for Rollins et al. data (by slFMD method). This table contains the rela...
Table S3. This table compares the sensitivity (true-positive rate) achieved by different normalizati...
Simulated data benchmark performance. This table contains the precision and recall estimates for sev...
The details for 140 and 123 differentially expressed orthologous transcripts detected by the Median ...
Table S1. The sensitivity and specificity of GRIPT with CADD and other tests under the AR and AD mod...
Table S1. This table summarizes the number of false positives claimed in differential expression ana...
Estimated relative abundance for Rollins et al. data (by slQUASI method). This table contains the re...
Benchmark performance for Williams et al. data. This table contains the precision and recall estimat...