PEACHi
GeneSet MAP kinase activation in TLR cascade (Pathways_-_Reactome.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o-+ -2.9 0.0181 29.0 4.0 0.83
Gene expression pattern
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).
List of genes
Ensembl ID Name Cluster
ENSG00000123268 ATF1 o--b
ENSG00000115966 ATF2 NonAssociatedWithProgression
ENSG00000170312 CDK1 o-+
ENSG00000118260 CREB1 o+-
ENSG00000108861 DUSP3 o-+
ENSG00000120875 DUSP4 ---
ENSG00000139318 DUSP6 NonAssociatedWithProgression
ENSG00000164086 DUSP7 o--a
ENSG00000126767 ELK1 ---
ENSG00000170345 FOS NonAssociatedWithProgression
ENSG00000073009 IKBKG --o
ENSG00000184216 IRAK1 o--a
ENSG00000177606 JUN NonAssociatedWithProgression
ENSG00000169032 MAP2K1 NonAssociatedWithProgression
ENSG00000126934 MAP2K2 o--a
ENSG00000034152 MAP2K3 ---
ENSG00000065559 MAP2K4 NonAssociatedWithProgression
ENSG00000076984 MAP2K7 ---
ENSG00000135341 MAP3K7 NonAssociatedWithProgression
ENSG00000100030 MAPK1 NonAssociatedWithProgression
ENSG00000112062 MAPK14 o++b
ENSG00000102882 MAPK3 o--b
ENSG00000166484 MAPK7 o-o
ENSG00000107643 MAPK8 o+o
ENSG00000050748 MAPK9 -o-
ENSG00000162889 MAPKAPK2 o--a
ENSG00000114738 MAPKAPK3 -oo
ENSG00000068305 MEF2A NonAssociatedWithProgression
ENSG00000106100 NOD1 o-+
ENSG00000113575 PPP2CA o--b
ENSG00000104695 PPP2CB +o+
ENSG00000105568 PPP2R1A o--b
ENSG00000137713 PPP2R1B o-+
ENSG00000112640 PPP2R5D o--a
ENSG00000104312 RIPK2 o++b
ENSG00000117676 RPS6KA1 --o
ENSG00000177189 RPS6KA3 NonAssociatedWithProgression
ENSG00000100784 RPS6KA5 NonAssociatedWithProgression
ENSG00000055208 TAB2 o--b
ENSG00000157625 TAB3 o+o
ENSG00000175104 TRAF6 NonAssociatedWithProgression