Table 3 Estimated group effect on a gene by lncDIFF on simulated low-abundance expression. Low-abundance expressions were sampled from three statistical distributions and two scenarios of parameters (defined by β ’s and CV). 1000 replicates were generated resulting in 1000 estimates per scenario
From: lncDIFF: a novel quasi-likelihood method for differential expression analysis of non-coding RNA
Sampling Distribution | Groups | Baseline Group A | Contrast B vs A | Contrast C vs A | Baseline Group A | Contrast B vs A | Contrast C vs A |
|---|---|---|---|---|---|---|---|
True Parameter | βi1 = 2 (CV = 1.75) | βi2 = 3 (CV = 1.45) | βi2 = 8 (CV = 1.26) | βi1 = 2 (CV = 1) | βi2 = 3 (CV = 0.7) | βi2 = 8 (CV = 0.6) | |
Exponential (CV = 1) | Mean | 1.98 | 3.03 | 7.91 | 1.98 | 3.03 | 7.91 |
Median | 1.97 | 3.02 | 7.85 | 1.97 | 3.02 | 7.85 | |
Negative Binomial | Mean | 1.99 | 3.00 | 8.03 | 2.00 | 3.01 | 8.06 |
Median | 1.98 | 2.96 | 7.97 | 2.00 | 3.01 | 8.02 | |
Log Normal | Mean | 1.99 | 2.99 | 7.98 | 1.99 | 3.00 | 8.02 |
Median | 1.95 | 2.92 | 7.82 | 1.97 | 2.95 | 7.95 |