PEACHi
GeneSet NUCLEAR_LUMEN (GO_-_Cellular_Component.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o--a -2.4 0.04861 231.0 47.0 32.81
o--b -6.0 1.8E-4 231.0 58.0 31.91
DownRegulated -6.3 2.0E-5 231.0 171.0 136.41
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
ENSG00000097007 ABL1 o--a
ENSG00000075624 ACTB o--b
ENSG00000136518 ACTL6A o--a
ENSG00000214274 ANG o++b
ENSG00000157500 APPL1 o+o
ENSG00000136044 APPL2 NonAssociatedWithProgression
ENSG00000137074 APTX NonAssociatedWithProgression
ENSG00000117713 ARID1A o--b
ENSG00000049618 ARID1B o+o
ENSG00000032219 ARID4A o-+
ENSG00000133794 ARNTL NonAssociatedWithProgression
ENSG00000111875 ASF1A NonAssociatedWithProgression
ENSG00000129691 ASH2L o--a
ENSG00000198356 ASNA1 o--b
ENSG00000118217 ATF6 o--a
ENSG00000124788 ATXN1 oo+
ENSG00000066427 ATXN3 NonAssociatedWithProgression
ENSG00000134152 C15orf29 NonAssociatedWithProgression
ENSG00000105176 C19orf2 o+-
ENSG00000010072 C1orf124 oo-
ENSG00000108468 CBX1 o++a
ENSG00000126653 CCDC55 o--a
ENSG00000152669 CCNO -+o
ENSG00000132964 CDK8 o+o
ENSG00000168564 CDKN2AIP NonAssociatedWithProgression
ENSG00000117724 CENPF o--a
ENSG00000167670 CHAF1A o--b
ENSG00000159259 CHAF1B o-o
ENSG00000183765 CHEK2 ---
ENSG00000131165 CHMP1A o--a
ENSG00000141076 CIRH1A NonAssociatedWithProgression
ENSG00000121058 COIL +-o
ENSG00000071894 CPSF1 o--a
ENSG00000127054 CPSF3L ---
ENSG00000111605 CPSF6 NonAssociatedWithProgression
ENSG00000013573 DDX11 o--a
ENSG00000165732 DDX21 -o-
ENSG00000089737 DDX24 NonAssociatedWithProgression
ENSG00000213782 DDX47 o-o
ENSG00000136271 DDX56 o--b
ENSG00000158796 DEDD -o-
ENSG00000160570 DEDD2 o--a
ENSG00000130826 DKC1 o--b
ENSG00000128590 DNAJB9 o--b
ENSG00000119772 DNMT3A o-o
ENSG00000157540 DYRK1A NonAssociatedWithProgression
ENSG00000107223 EDF1 o--b
ENSG00000074266 EED o--a
ENSG00000134759 ELP2 ---
ENSG00000134014 ELP3 o+o
ENSG00000109911 ELP4 NonAssociatedWithProgression
ENSG00000120616 EPC1 o--b
ENSG00000104884 ERCC2 ---
ENSG00000163161 ERCC3 o-o
ENSG00000134899 ERCC5 NonAssociatedWithProgression
ENSG00000049167 ERCC8 -+o
ENSG00000171311 EXOSC1 NonAssociatedWithProgression
ENSG00000171824 EXOSC10 NonAssociatedWithProgression
ENSG00000123737 EXOSC9 o--b
ENSG00000106462 EZH2 NonAssociatedWithProgression
ENSG00000105058 FAM32A o--b
ENSG00000102081 FMR1 o+-
ENSG00000114416 FXR1 ---
ENSG00000167491 GATAD2A o--a
ENSG00000082516 GEMIN5 NonAssociatedWithProgression
ENSG00000152147 GEMIN6 o+o
ENSG00000142252 GEMIN7 o--b
ENSG00000139436 GIT2 NonAssociatedWithProgression
ENSG00000126603 GLIS2 NonAssociatedWithProgression
ENSG00000163938 GNL3 o--b
ENSG00000125651 GTF2F1 o--a
ENSG00000110768 GTF2H1 o++b
ENSG00000077235 GTF3C1 o--b
ENSG00000115207 GTF3C2 NonAssociatedWithProgression
ENSG00000119041 GTF3C3 -oo
ENSG00000125484 GTF3C4 NonAssociatedWithProgression
ENSG00000148308 GTF3C5 o--a
ENSG00000155115 GTF3C6 NonAssociatedWithProgression
ENSG00000180353 HCLS1 o--a
ENSG00000116478 HDAC1 ---
ENSG00000100429 HDAC10 o--b
ENSG00000163517 HDAC11 -oo
ENSG00000196591 HDAC2 NonAssociatedWithProgression
ENSG00000171720 HDAC3 ---
ENSG00000068024 HDAC4 o--b
ENSG00000094631 HDAC6 o--a
ENSG00000147099 HDAC8 oo-
ENSG00000144485 HES6 ---
ENSG00000100644 HIF1A NonAssociatedWithProgression
ENSG00000064393 HIPK2 NonAssociatedWithProgression
ENSG00000137309 HMGA1 o--b
ENSG00000135486 HNRNPA1 o+-
ENSG00000104824 HNRNPL NonAssociatedWithProgression
ENSG00000163565 IFI16 o--a
ENSG00000070061 IKBKAP NonAssociatedWithProgression
ENSG00000143621 ILF2 o-o
ENSG00000177971 IMP3 o--a
ENSG00000136718 IMP4 o--b
ENSG00000168556 ING2 NonAssociatedWithProgression
ENSG00000164880 INTS1 o--b
ENSG00000104613 INTS10 NonAssociatedWithProgression
ENSG00000138785 INTS12 o--b
ENSG00000108506 INTS2 -+o
ENSG00000143624 INTS3 o--a
ENSG00000149262 INTS4 o--b
ENSG00000185085 INTS5 o--b
ENSG00000102786 INTS6 -+o
ENSG00000143493 INTS7 +oo
ENSG00000164941 INTS8 NonAssociatedWithProgression
ENSG00000104299 INTS9 o--b
ENSG00000116679 IVNS1ABP NonAssociatedWithProgression
ENSG00000153814 JAZF1 ---
ENSG00000151657 KIN o+o
ENSG00000122550 KLHL7 o+o
ENSG00000182481 KPNA2 o--a
ENSG00000111615 KRR1 o--b
ENSG00000143013 LMO4 -+o
ENSG00000077454 LRCH4 ---
ENSG00000145220 LYAR o--b
ENSG00000166508 MCM7 o--b
ENSG00000187778 MCRS1 o--b
ENSG00000135679 MDM2 -o-
ENSG00000125686 MED1 NonAssociatedWithProgression
ENSG00000108510 MED13 NonAssociatedWithProgression
ENSG00000180182 MED14 -oo
ENSG00000175221 MED16 ---
ENSG00000130772 MED18 -+o
ENSG00000152944 MED21 -o-
ENSG00000148297 MED22 o-o
ENSG00000112282 MED23 NonAssociatedWithProgression
ENSG00000105085 MED26 o--a
ENSG00000164758 MED30 o+-
ENSG00000136146 MED4 NonAssociatedWithProgression
ENSG00000133997 MED6 NonAssociatedWithProgression
ENSG00000155868 MED7 NonAssociatedWithProgression
ENSG00000159479 MED8 o--b
ENSG00000133895 MEN1 ---
ENSG00000155438 MKI67IP NonAssociatedWithProgression
ENSG00000167548 MLL2 o-o
ENSG00000123562 MORF4L2 NonAssociatedWithProgression
ENSG00000103152 MPG o--a
ENSG00000124383 MPHOSPH10 o--b
ENSG00000132382 MYBBP1A o--b
ENSG00000187109 NAP1L1 +-o
ENSG00000205531 NAP1L4 ---
ENSG00000141562 NARF NonAssociatedWithProgression
ENSG00000136937 NCBP1 o+-
ENSG00000115053 NCL o--b
ENSG00000198646 NCOA6 o--b
ENSG00000186010 NDUFA13 o-o
ENSG00000186575 NF2 o--b
ENSG00000001167 NFYA NonAssociatedWithProgression
ENSG00000120837 NFYB o-o
ENSG00000066136 NFYC NonAssociatedWithProgression
ENSG00000100138 NHP2L1 NonAssociatedWithProgression
ENSG00000184967 NOC4L o--a
ENSG00000140939 NOL3 --o
ENSG00000165271 NOL6 o--b
ENSG00000198000 NOL8 -oo
ENSG00000166197 NOLC1 o--b
ENSG00000146909 NOM1 o--b
ENSG00000170485 NPAS2 o-+
ENSG00000181163 NPM1 o--b
ENSG00000037474 NSUN2 o--a
ENSG00000167005 NUDT21 NonAssociatedWithProgression
ENSG00000083635 NUFIP1 NonAssociatedWithProgression
ENSG00000138750 NUP54 o-o
ENSG00000110713 NUP98 o--a
ENSG00000114026 OGG1 o--a
ENSG00000104147 OIP5 -oo
ENSG00000143799 PARP1 o--b
ENSG00000167085 PHB NonAssociatedWithProgression
ENSG00000109118 PHF12 o--a
ENSG00000135365 PHF21A ---
ENSG00000160783 PMF1 o-o
ENSG00000140464 PML o-o
ENSG00000176903 PNMA1 +oo
ENSG00000115946 PNO1 -o-
ENSG00000101868 POLA1 NonAssociatedWithProgression
ENSG00000101751 POLI o+-
ENSG00000051341 POLQ +o+
ENSG00000137054 POLR1E o--b
ENSG00000181222 POLR2A ---
ENSG00000047315 POLR2B +oo
ENSG00000144231 POLR2D o--b
ENSG00000005075 POLR2J ---
ENSG00000177700 POLR2L o-o
ENSG00000186141 POLR3C ---
ENSG00000113356 POLR3G -+o
ENSG00000100413 POLR3H o--a
ENSG00000161980 POLR3K -oo
ENSG00000104356 POP1 o+o
ENSG00000172336 POP7 o--a
ENSG00000155846 PPARGC1B NonAssociatedWithProgression
ENSG00000138398 PPIG o--b
ENSG00000108819 PPP1R9B -+o
ENSG00000105618 PRPF31 NonAssociatedWithProgression
ENSG00000011304 PTBP1 ---
ENSG00000139687 RB1 NonAssociatedWithProgression
ENSG00000239306 RBM14 o--a
ENSG00000131051 RBM39 o--b
ENSG00000168214 RBPJ o--b
ENSG00000173039 RELA o--a
ENSG00000148300 REXO4 o--b
ENSG00000129197 RPAIN o+o
ENSG00000142676 RPL11 o--b
ENSG00000100316 RPL3 -o-
ENSG00000136942 RPL35 o--b
ENSG00000130255 RPL36 o-o
ENSG00000148688 RPP30 NonAssociatedWithProgression
ENSG00000152464 RPP38 o+o
ENSG00000124787 RPP40 NonAssociatedWithProgression
ENSG00000105372 RPS19 -o-
ENSG00000171863 RPS7 o--a
ENSG00000160214 RRP1 ---
ENSG00000048649 RSF1 +-o
ENSG00000137996 RTCD1 NonAssociatedWithProgression
ENSG00000175792 RUVBL1 ---
ENSG00000183207 RUVBL2 o--a
ENSG00000150459 SAP18 o-o
ENSG00000164105 SAP30 o++b
ENSG00000198301 SDAD1 o--a
ENSG00000107290 SETX o+o
ENSG00000127922 SHFM1 -+o
ENSG00000174669 SLC29A2 ---
ENSG00000164609 SLU7 o--a
ENSG00000175387 SMAD2 NonAssociatedWithProgression
ENSG00000141646 SMAD4 o--b
ENSG00000080503 SMARCA2 NonAssociatedWithProgression
ENSG00000127616 SMARCA4 o--b
ENSG00000099956 SMARCB1 ---
ENSG00000173473 SMARCC1 o--a
ENSG00000139613 SMARCC2 --o
ENSG00000066117 SMARCD1 NonAssociatedWithProgression
ENSG00000108604 SMARCD2 o--b
ENSG00000082014 SMARCD3 +oo
ENSG00000073584 SMARCE1 -oo
ENSG00000108055 SMC3 NonAssociatedWithProgression
ENSG00000123415 SMUG1 NonAssociatedWithProgression
ENSG00000165684 SNAPC4 o--b
ENSG00000067066 SP100 o++b
ENSG00000115306 SPTBN1 oo-
ENSG00000160460 SPTBN4 NonAssociatedWithProgression
ENSG00000167881 SRP68 o-+
ENSG00000113387 SUB1 +-o
ENSG00000111707 SUDS3 o--a
ENSG00000148296 SURF6 NonAssociatedWithProgression
ENSG00000178691 SUZ12 o--b
ENSG00000125755 SYMPK ---
ENSG00000147133 TAF1 NonAssociatedWithProgression
ENSG00000166337 TAF10 o--a
ENSG00000064995 TAF11 o--b
ENSG00000120656 TAF12 o--a
ENSG00000197780 TAF13 o+o
ENSG00000064313 TAF2 o-o
ENSG00000130699 TAF4 o++b
ENSG00000148835 TAF5 o--a
ENSG00000106290 TAF6 NonAssociatedWithProgression
ENSG00000162227 TAF6L ---
ENSG00000178913 TAF7 o--b
ENSG00000137413 TAF8 NonAssociatedWithProgression
ENSG00000085231 TAF9 o+o
ENSG00000112592 TBP NonAssociatedWithProgression
ENSG00000070814 TCOF1 o--b
ENSG00000139372 TDG NonAssociatedWithProgression
ENSG00000129566 TEP1 +o+
ENSG00000100109 TFIP11 +-o
ENSG00000173451 THAP2 -+o
ENSG00000054118 THRAP3 o--a
ENSG00000105197 TIMM50 ---
ENSG00000198900 TOP1 o+o
ENSG00000131747 TOP2A o--b
ENSG00000077097 TOP2B o+o
ENSG00000163781 TOPBP1 o+o
ENSG00000197579 TOPORS -o-
ENSG00000141510 TP53 o--a
ENSG00000067369 TP53BP1 o+o
ENSG00000204713 TRIM27 o--a
ENSG00000196367 TRRAP o-o
ENSG00000184205 TSPYL2 o--b
ENSG00000116830 TTF2 oo+
ENSG00000160201 U2AF1 NonAssociatedWithProgression
ENSG00000103275 UBE2I o--a
ENSG00000108312 UBTF o--a
ENSG00000011260 UTP18 NonAssociatedWithProgression
ENSG00000120800 UTP20 NonAssociatedWithProgression
ENSG00000132467 UTP3 o++b
ENSG00000198554 WDHD1 ---
ENSG00000160193 WDR4 o--a
ENSG00000165392 WRN +oo
ENSG00000082898 XPO1 o-o
ENSG00000196419 XRCC6 o--b
ENSG00000088930 XRN2 NonAssociatedWithProgression
ENSG00000127337 YEATS4 o-o
ENSG00000163848 ZNF148 NonAssociatedWithProgression
ENSG00000109917 ZNF259 o--b
ENSG00000171606 ZNF274 o--a
ENSG00000162702 ZNF281 o+o
ENSG00000109445 ZNF330 o++b
ENSG00000113761 ZNF346 -o-
ENSG00000081665 ZNF506 NonAssociatedWithProgression
ENSG00000075292 ZNF638 o+o