A Derived Network-Based Interferon-Related Signature of Human Macrophages Responding to Mycobacterium tuberculosis
Table 1
GSEA using transcriptome data of whole blood from human PTB patients.
Cohort1
Group comparison2
THP1r2Mtb-induced
TMtb-iNet
TMtb-iEx
NES3
FDR4
Correlation4
NES3
FDR4
Correlation4
NES3
FDR4
Correlation4
Training set
PTB versus HC
3.23
0.000
Positive
3.30
0.000
Positive
2.66
0.000
Positive
PTB versus LTB
3.00
0.000
Positive
3.01
0.000
Positive
2.53
0.000
Positive
LTB versus HC
−1.22
0.071
Null
−0.91
0.902
Null
−1.37
0.062
Null
Test set
PTB versus HC
3.46
0.000
Positive
3.48
0.000
Positive
2.86
0.000
Positive
PTB versus LTB
3.12
0.000
Positive
3.23
0.000
Positive
2.51
0.000
Positive
LTB versus HC
2.37
0.000
Positive
2.25
0.000
Positive
2.11
0.000
Positive
Validation set
PTB versus LTB
3.27
0.000
Positive
3.28
0.000
Positive
2.59
0.000
Positive
1Training set and test set: all donors were from London, UK; PTB: pulmonary TB; LTB: latent TB; HC: healthy controls; validation set: all donors were from Cape Town, South Africa [2].
2Group-group contrasted and ranked by LIMMA-based method [27, 28].
3(+) NES for positive correlation, (−) NES for negative correlation.
4A FDR of 0.05 or lower was regarded as statistically significant for NES (“positive” or “negative”), otherwise “Null.”