PEACHi
GeneSet Metabolism of RNA (Pathways_-_Reactome.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o--a -2.2 0.04176 178.0 37.0 25.28
o--b -3.9 0.00596 178.0 42.0 24.59
o-o -3.8 0.00666 178.0 29.0 14.92
DownRegulated -7.3 0.0 178.0 138.0 105.12
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
ENSG00000094914 AAAS o--a
ENSG00000142208 AKT1 ---
ENSG00000140350 ANP32A o--a
ENSG00000158435 C2orf29 o--b
ENSG00000108349 CASC3 o-o
ENSG00000182973 CNOT10 ---
ENSG00000111596 CNOT2 o--b
ENSG00000088038 CNOT3 o--a
ENSG00000080802 CNOT4 ---
ENSG00000113300 CNOT6 +-o
ENSG00000138767 CNOT6L o--a
ENSG00000198791 CNOT7 --o
ENSG00000155508 CNOT8 oo-
ENSG00000162290 DCP1A o+o
ENSG00000151065 DCP1B o++b
ENSG00000172795 DCP2 o-o
ENSG00000110063 DCPS o--a
ENSG00000064703 DDX20 NonAssociatedWithProgression
ENSG00000110367 DDX6 o--b
ENSG00000083520 DIS3 o--a
ENSG00000179151 EDC3 o-o
ENSG00000038358 EDC4 NonAssociatedWithProgression
ENSG00000161960 EIF4A1 -o-
ENSG00000156976 EIF4A2 o+o
ENSG00000141543 EIF4A3 NonAssociatedWithProgression
ENSG00000063046 EIF4B o--a
ENSG00000114867 EIF4G1 ---
ENSG00000066044 ELAVL1 NonAssociatedWithProgression
ENSG00000120705 ETF1 o--a
ENSG00000171311 EXOSC1 NonAssociatedWithProgression
ENSG00000130713 EXOSC2 o--b
ENSG00000107371 EXOSC3 NonAssociatedWithProgression
ENSG00000178896 EXOSC4 --o
ENSG00000077348 EXOSC5 o--a
ENSG00000223496 EXOSC6 o--a
ENSG00000075914 EXOSC7 NonAssociatedWithProgression
ENSG00000123737 EXOSC9 o--b
ENSG00000149806 FAU o-o
ENSG00000082516 GEMIN5 NonAssociatedWithProgression
ENSG00000152147 GEMIN6 o+o
ENSG00000142252 GEMIN7 o--b
ENSG00000189369 GSPT2 o+-
ENSG00000138668 HNRNPD oo-
ENSG00000204389 HSPA1A o--b
ENSG00000109971 HSPA8 ---
ENSG00000106211 HSPB1 o--b
ENSG00000088247 KHSRP o--b
ENSG00000175324 LSM1 o-o
ENSG00000204392 LSM2 --o
ENSG00000130520 LSM4 o--a
ENSG00000106355 LSM5 o++b
ENSG00000164167 LSM6 NonAssociatedWithProgression
ENSG00000130332 LSM7 o--a
ENSG00000162385 MAGOH o--b
ENSG00000112062 MAPK14 o++b
ENSG00000162889 MAPKAPK2 o--a
ENSG00000136937 NCBP1 o+-
ENSG00000114503 NCBP2 o--b
ENSG00000111581 NUP107 -+o
ENSG00000069248 NUP133 o+-
ENSG00000124789 NUP153 o+-
ENSG00000113569 NUP155 NonAssociatedWithProgression
ENSG00000030066 NUP160 NonAssociatedWithProgression
ENSG00000095319 NUP188 ---
ENSG00000155561 NUP205 -o-
ENSG00000132182 NUP210 o-o
ENSG00000126883 NUP214 NonAssociatedWithProgression
ENSG00000163002 NUP35 oo-
ENSG00000075188 NUP37 NonAssociatedWithProgression
ENSG00000093000 NUP50 NonAssociatedWithProgression
ENSG00000138750 NUP54 o-o
ENSG00000213024 NUP62 o--a
ENSG00000125450 NUP85 o--b
ENSG00000108559 NUP88 NonAssociatedWithProgression
ENSG00000102900 NUP93 o-o
ENSG00000110713 NUP98 o--a
ENSG00000139496 NUPL1 +-o
ENSG00000136243 NUPL2 o+-
ENSG00000070756 PABPC1 o--b
ENSG00000172239 PAIP1 o--b
ENSG00000135473 PAN2 NonAssociatedWithProgression
ENSG00000152520 PAN3 NonAssociatedWithProgression
ENSG00000140694 PARN o-o
ENSG00000166889 PATL1 NonAssociatedWithProgression
ENSG00000164902 PHAX NonAssociatedWithProgression
ENSG00000196313 POM121 o--b
ENSG00000113575 PPP2CA o--b
ENSG00000105568 PPP2R1A o--b
ENSG00000221914 PPP2R2A o--b
ENSG00000154229 PRKCA oo+
ENSG00000163932 PRKCD NonAssociatedWithProgression
ENSG00000100462 PRMT5 o--a
ENSG00000129084 PSMA1 o--a
ENSG00000106588 PSMA2 o+o
ENSG00000100567 PSMA3 o+o
ENSG00000041357 PSMA4 -+o
ENSG00000143106 PSMA5 o--a
ENSG00000100902 PSMA6 NonAssociatedWithProgression
ENSG00000101182 PSMA7 -+o
ENSG00000008018 PSMB1 o-o
ENSG00000126067 PSMB2 oo-
ENSG00000108294 PSMB3 -+o
ENSG00000159377 PSMB4 NonAssociatedWithProgression
ENSG00000100804 PSMB5 o--b
ENSG00000142507 PSMB6 o-o
ENSG00000136930 PSMB7 NonAssociatedWithProgression
ENSG00000204264 PSMB8 o--b
ENSG00000240065 PSMB9 o-o
ENSG00000100764 PSMC1 NonAssociatedWithProgression
ENSG00000161057 PSMC2 o+o
ENSG00000165916 PSMC3 o-o
ENSG00000013275 PSMC4 NonAssociatedWithProgression
ENSG00000087191 PSMC5 -+o
ENSG00000100519 PSMC6 o+o
ENSG00000173692 PSMD1 NonAssociatedWithProgression
ENSG00000101843 PSMD10 o+o
ENSG00000108671 PSMD11 NonAssociatedWithProgression
ENSG00000197170 PSMD12 oo-
ENSG00000185627 PSMD13 o--b
ENSG00000115233 PSMD14 o+o
ENSG00000175166 PSMD2 ---
ENSG00000108344 PSMD3 ---
ENSG00000159352 PSMD4 NonAssociatedWithProgression
ENSG00000095261 PSMD5 o++b
ENSG00000163636 PSMD6 o+o
ENSG00000099341 PSMD8 o--b
ENSG00000110801 PSMD9 o--b
ENSG00000100911 PSME2 NonAssociatedWithProgression
ENSG00000131467 PSME3 o-o
ENSG00000068878 PSME4 o--b
ENSG00000125818 PSMF1 o-+
ENSG00000101146 RAE1 -o-
ENSG00000153201 RANBP2 o+o
ENSG00000131795 RBM8A +-o
ENSG00000205937 RNPS1 NonAssociatedWithProgression
ENSG00000147403 RPL10 o-o
ENSG00000198755 RPL10A NonAssociatedWithProgression
ENSG00000142676 RPL11 o--b
ENSG00000197958 RPL12 NonAssociatedWithProgression
ENSG00000167526 RPL13 o--b
ENSG00000142541 RPL13A NonAssociatedWithProgression
ENSG00000188846 RPL14 o--a
ENSG00000174748 RPL15 o--a
ENSG00000215472 RPL17 o-o
ENSG00000105640 RPL18A o-o
ENSG00000108298 RPL19 o-o
ENSG00000122026 RPL21 o--a
ENSG00000116251 RPL22 +-o
ENSG00000125691 RPL23 NonAssociatedWithProgression
ENSG00000198242 RPL23A o--a
ENSG00000114391 RPL24 o--b
ENSG00000161970 RPL26 o-o
ENSG00000131469 RPL27 NonAssociatedWithProgression
ENSG00000166441 RPL27A o--a
ENSG00000108107 RPL28 o--b
ENSG00000162244 RPL29 o--a
ENSG00000100316 RPL3 -o-
ENSG00000156482 RPL30 o++b
ENSG00000071082 RPL31 o-+
ENSG00000144713 RPL32 NonAssociatedWithProgression
ENSG00000109475 RPL34 NonAssociatedWithProgression
ENSG00000136942 RPL35 o--b
ENSG00000182899 RPL35A NonAssociatedWithProgression
ENSG00000130255 RPL36 o-o
ENSG00000241343 RPL36A ---
ENSG00000145592 RPL37 NonAssociatedWithProgression
ENSG00000197756 RPL37A NonAssociatedWithProgression
ENSG00000198918 RPL39 o-+
ENSG00000174444 RPL4 o--b
ENSG00000122406 RPL5 NonAssociatedWithProgression
ENSG00000089009 RPL6 o--b
ENSG00000147604 RPL7 NonAssociatedWithProgression
ENSG00000148303 RPL7A -o-
ENSG00000161016 RPL8 ---
ENSG00000163682 RPL9 NonAssociatedWithProgression
ENSG00000089157 RPLP0 o--b
ENSG00000137818 RPLP1 NonAssociatedWithProgression
ENSG00000177600 RPLP2 NonAssociatedWithProgression
ENSG00000124614 RPS10 NonAssociatedWithProgression
ENSG00000142534 RPS11 o--a
ENSG00000112306 RPS12 o--a
ENSG00000110700 RPS13 NonAssociatedWithProgression
ENSG00000164587 RPS14 -o-
ENSG00000115268 RPS15 NonAssociatedWithProgression
ENSG00000134419 RPS15A o+-
ENSG00000105193 RPS16 o--b
ENSG00000231500 RPS18 o-o
ENSG00000105372 RPS19 -o-
ENSG00000140988 RPS2 o--a
ENSG00000008988 RPS20 o--a
ENSG00000186468 RPS23 o-o
ENSG00000138326 RPS24 NonAssociatedWithProgression
ENSG00000197728 RPS26 NonAssociatedWithProgression
ENSG00000177954 RPS27 o-o
ENSG00000143947 RPS27A o+o
ENSG00000233927 RPS28 o-o
ENSG00000213741 RPS29 NonAssociatedWithProgression
ENSG00000149273 RPS3 o--b
ENSG00000145425 RPS3A o-o
ENSG00000198034 RPS4X NonAssociatedWithProgression
ENSG00000129824 RPS4Y1 o--a
ENSG00000083845 RPS5 o--a
ENSG00000137154 RPS6 o--a
ENSG00000171863 RPS7 o--a
ENSG00000142937 RPS8 NonAssociatedWithProgression
ENSG00000170889 RPS9 o--b
ENSG00000168028 RPSA o--b
ENSG00000144580 RQCD1 NonAssociatedWithProgression
ENSG00000085415 SEH1L o-o
ENSG00000119335 SET o--b
ENSG00000157106 SMG1 o+o
ENSG00000198952 SMG5 o--b
ENSG00000070366 SMG6 ---
ENSG00000116698 SMG7 ---
ENSG00000172062 SMN1 NonAssociatedWithProgression
ENSG00000125835 SNRPB o--a
ENSG00000167088 SNRPD1 o--a
ENSG00000125743 SNRPD2 o--a
ENSG00000100028 SNRPD3 o-o
ENSG00000182004 SNRPE NonAssociatedWithProgression
ENSG00000143977 SNRPG o+-
ENSG00000137574 TGS1 NonAssociatedWithProgression
ENSG00000083312 TNPO1 oo-
ENSG00000047410 TPR o+-
ENSG00000221983 UBA52 o--a
ENSG00000170315 UBB ---
ENSG00000005007 UPF1 o--b
ENSG00000151461 UPF2 NonAssociatedWithProgression
ENSG00000169062 UPF3A -oo
ENSG00000125351 UPF3B NonAssociatedWithProgression
ENSG00000116455 WDR77 o--a
ENSG00000082898 XPO1 o-o
ENSG00000114127 XRN1 o++b
ENSG00000166913 YWHAB o--b
ENSG00000164924 YWHAZ o--b
ENSG00000128016 ZFP36 o--b
ENSG00000185650 ZFP36L1 o-o