| Antiviral mechanism by IFN-stimulated genes |
Pathways_-_Reactome.gmt.txt |
-2.5 |
0.03236 |
46.0 |
5.0 |
1.49 |
| BIOCARTA GPCR PATHWAY |
Pathways_-_KEGGBioCarta.gmt.txt |
-3.0 |
0.02854 |
15.0 |
3.0 |
0.49 |
| Export of Viral Ribonucleoproteins from Nucleus |
Pathways_-_Reactome.gmt.txt |
-3.1 |
0.01298 |
23.0 |
4.0 |
0.75 |
| Glucose transport |
Pathways_-_Reactome.gmt.txt |
-3.1 |
0.01417 |
24.0 |
4.0 |
0.78 |
| HIV Interactions of Rev with host cellular proteins |
HIV_Collection.gmt.txt |
-2.9 |
0.02644 |
26.0 |
4.0 |
0.84 |
| HIV Interactions of Vpr with host cellular proteins |
HIV_Collection.gmt.txt |
-3.0 |
0.0246 |
25.0 |
4.0 |
0.81 |
| HIV Nuclear import of Rev protein |
HIV_Collection.gmt.txt |
-3.1 |
0.0246 |
24.0 |
4.0 |
0.78 |
| HIV Rev-mediated nuclear export of HIV-1 RNA |
HIV_Collection.gmt.txt |
-3.1 |
0.0246 |
24.0 |
4.0 |
0.78 |
| HIV Vpr-mediated nuclear import of PICs |
HIV_Collection.gmt.txt |
-3.1 |
0.0246 |
23.0 |
4.0 |
0.75 |
| Hexose transport |
Pathways_-_Reactome.gmt.txt |
-3.1 |
0.01417 |
24.0 |
4.0 |
0.78 |
| ISG15 antiviral mechanism |
Pathways_-_Reactome.gmt.txt |
-2.5 |
0.03236 |
46.0 |
5.0 |
1.49 |
| KEGG THYROID CANCER |
Pathways_-_KEGGBioCarta.gmt.txt |
-2.8 |
0.0322 |
16.0 |
3.0 |
0.52 |
| Loss of Nlp from mitotic centrosomes |
Pathways_-_Reactome.gmt.txt |
-2.1 |
0.04749 |
38.0 |
4.0 |
1.23 |
| Loss of proteins required for interphase microtubule organizationfrom the centrosome |
Pathways_-_Reactome.gmt.txt |
-2.1 |
0.04749 |
38.0 |
4.0 |
1.23 |
| Metabolism of non-coding RNA |
Pathways_-_Reactome.gmt.txt |
-4.3 |
0.0041 |
31.0 |
6.0 |
1.0 |
| NEP/NS2 Interacts with the Cellular Export Machinery |
Pathways_-_Reactome.gmt.txt |
-3.2 |
0.01135 |
22.0 |
4.0 |
0.71 |
| NUCLEAR PORE |
GO_-_Cellular_Component.gmt.txt |
-2.7 |
0.03337 |
17.0 |
3.0 |
0.55 |
| PORE COMPLEX |
GO_-_Cellular_Component.gmt.txt |
-2.5 |
0.04332 |
19.0 |
3.0 |
0.62 |
| Processing of Capped Intron-Containing Pre-mRNA |
Pathways_-_Reactome.gmt.txt |
-3.0 |
0.01443 |
95.0 |
9.0 |
3.08 |
| Regulation of Glucokinase by Glucokinase Regulatory Protein |
Pathways_-_Reactome.gmt.txt |
-3.4 |
0.00951 |
20.0 |
4.0 |
0.65 |
| SPINDLE MICROTUBULE |
GO_-_Cellular_Component.gmt.txt |
-3.7 |
0.00679 |
10.0 |
3.0 |
0.32 |
| Transport of Mature Transcript to Cytoplasm |
Pathways_-_Reactome.gmt.txt |
-2.8 |
0.01955 |
39.0 |
5.0 |
1.26 |
| Transport of Mature mRNA Derived from an Intronless Transcript |
Pathways_-_Reactome.gmt.txt |
-3.9 |
0.00574 |
25.0 |
5.0 |
0.81 |
| Transport of Mature mRNA derived from an Intron-Containing Transcript |
Pathways_-_Reactome.gmt.txt |
-2.9 |
0.01811 |
38.0 |
5.0 |
1.23 |
| Transport of Mature mRNAs Derived from Intronless Transcripts |
Pathways_-_Reactome.gmt.txt |
-3.9 |
0.00574 |
25.0 |
5.0 |
0.81 |
| Transport of Ribonucleoproteins into the Host Nucleus |
Pathways_-_Reactome.gmt.txt |
-3.3 |
0.01023 |
21.0 |
4.0 |
0.68 |
| Transport of the SLBP Dependant Mature mRNA |
Pathways_-_Reactome.gmt.txt |
-4.0 |
0.00574 |
24.0 |
5.0 |
0.78 |
| Transport of the SLBP independent Mature mRNA |
Pathways_-_Reactome.gmt.txt |
-4.0 |
0.00574 |
24.0 |
5.0 |
0.78 |
| V$RORA1 01 |
TFmiRNA_Targets.gmt.txt |
-4.3 |
0.01708 |
80.0 |
10.0 |
2.59 |
| V$YY1 01 |
TFmiRNA_Targets.gmt.txt |
-4.4 |
0.01708 |
93.0 |
11.0 |
3.01 |
| chr10q26 |
Chromosomal_Bands.gmt.txt |
-2.3 |
0.03117 |
22.0 |
3.0 |
0.71 |
| chr1p22 |
Chromosomal_Bands.gmt.txt |
-2.0 |
0.04364 |
26.0 |
3.0 |
0.84 |
| chr2q33 |
Chromosomal_Bands.gmt.txt |
-2.7 |
0.02218 |
29.0 |
4.0 |
0.94 |
| chr3q25 |
Chromosomal_Bands.gmt.txt |
-2.8 |
0.01797 |
16.0 |
3.0 |
0.52 |
| hsa-miR-101-3p targets |
TarBase_6beta.gmt.txt |
-4.8 |
0.004 |
85.0 |
11.0 |
2.75 |
| mRNA Processing |
Pathways_-_Reactome.gmt.txt |
-2.7 |
0.02336 |
105.0 |
9.0 |
3.4 |
| snRNP Assembly |
Pathways_-_Reactome.gmt.txt |
-4.3 |
0.0041 |
31.0 |
6.0 |
1.0 |
Figure: Temporal expression patterns were grouped into clusters with differential expression profiles at
three phases of the viral life cycle, namely reverse transcription, integration, and late phase.
Boxplots on the left show the distribution of the normalized regression weights for each viral phase used in clustering.
Expression change pattern of each gene over time is plotted for mock and HIV samples (dotted orange lines) along with the cluster median (bold red line).