PEACHi
GeneSet NUCLEAR_PART (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 -3.8 0.00581 335.0 71.0 47.58
o--b -6.2 1.4E-4 335.0 78.0 46.28
DownRegulated -8.1 0.0 335.0 246.0 197.83
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
ENSG00000094914 AAAS o--a
ENSG00000097007 ABL1 o--a
ENSG00000102977 ACD o+-
ENSG00000075624 ACTB o--b
ENSG00000136518 ACTL6A o--a
ENSG00000141552 ANAPC11 NonAssociatedWithProgression
ENSG00000053900 ANAPC4 NonAssociatedWithProgression
ENSG00000089053 ANAPC5 o++a
ENSG00000214274 ANG o++b
ENSG00000166181 API5 NonAssociatedWithProgression
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
ENSG00000085224 ATRX -oo
ENSG00000124788 ATXN1 oo+
ENSG00000066427 ATXN3 NonAssociatedWithProgression
ENSG00000138376 BARD1 o--b
ENSG00000116752 BCAS2 o+o
ENSG00000171791 BCL2 NonAssociatedWithProgression
ENSG00000113734 BNIP1 o--b
ENSG00000140299 BNIP2 NonAssociatedWithProgression
ENSG00000104765 BNIP3L NonAssociatedWithProgression
ENSG00000012048 BRCA1 NonAssociatedWithProgression
ENSG00000185515 BRCC3 o+o
ENSG00000158019 BRE o--a
ENSG00000156970 BUB1B +oo
ENSG00000134152 C15orf29 NonAssociatedWithProgression
ENSG00000105176 C19orf2 o+-
ENSG00000010072 C1orf124 oo-
ENSG00000108468 CBX1 o++a
ENSG00000094916 CBX5 NonAssociatedWithProgression
ENSG00000126653 CCDC55 o--a
ENSG00000134480 CCNH -o-
ENSG00000152669 CCNO -+o
ENSG00000094880 CDC23 NonAssociatedWithProgression
ENSG00000176386 CDC26 NonAssociatedWithProgression
ENSG00000168438 CDC40 -oo
ENSG00000132964 CDK8 o+o
ENSG00000168564 CDKN2AIP NonAssociatedWithProgression
ENSG00000117724 CENPF o--a
ENSG00000167670 CHAF1A o--b
ENSG00000159259 CHAF1B o-o
ENSG00000149554 CHEK1 o+o
ENSG00000183765 CHEK2 ---
ENSG00000131165 CHMP1A o--a
ENSG00000141076 CIRH1A NonAssociatedWithProgression
ENSG00000121058 COIL +-o
ENSG00000166200 COPS2 o--b
ENSG00000071894 CPSF1 o--a
ENSG00000127054 CPSF3L ---
ENSG00000111605 CPSF6 NonAssociatedWithProgression
ENSG00000013573 DDX11 o--a
ENSG00000157349 DDX19B NonAssociatedWithProgression
ENSG00000165732 DDX21 -o-
ENSG00000174243 DDX23 -o-
ENSG00000089737 DDX24 NonAssociatedWithProgression
ENSG00000213782 DDX47 o-o
ENSG00000136271 DDX56 o--b
ENSG00000158796 DEDD -o-
ENSG00000160570 DEDD2 o--a
ENSG00000172893 DHCR7 o--b
ENSG00000109606 DHX15 +-o
ENSG00000067596 DHX8 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
ENSG00000108883 EFTUD2 -o-
ENSG00000132507 EIF5A o--a
ENSG00000134759 ELP2 ---
ENSG00000134014 ELP3 o+o
ENSG00000109911 ELP4 NonAssociatedWithProgression
ENSG00000102119 EMD o-o
ENSG00000120616 EPC1 o--b
ENSG00000104884 ERCC2 ---
ENSG00000163161 ERCC3 o-o
ENSG00000175595 ERCC4 o-o
ENSG00000134899 ERCC5 NonAssociatedWithProgression
ENSG00000049167 ERCC8 -+o
ENSG00000171311 EXOSC1 NonAssociatedWithProgression
ENSG00000171824 EXOSC10 NonAssociatedWithProgression
ENSG00000107371 EXOSC3 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
ENSG00000119392 GLE1 NonAssociatedWithProgression
ENSG00000126603 GLIS2 NonAssociatedWithProgression
ENSG00000128266 GNAZ 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
ENSG00000113648 H2AFY 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
ENSG00000164104 HMGB2 o--b
ENSG00000177733 HNRNPA0 NonAssociatedWithProgression
ENSG00000135486 HNRNPA1 o+-
ENSG00000122566 HNRNPA2B1 oo-
ENSG00000092199 HNRNPC o-o
ENSG00000104824 HNRNPL NonAssociatedWithProgression
ENSG00000125944 HNRNPR NonAssociatedWithProgression
ENSG00000153187 HNRNPU o--b
ENSG00000152795 HNRPDL oo-
ENSG00000144381 HSPD1 o--b
ENSG00000109854 HTATIP2 o+-
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
ENSG00000205339 IPO7 NonAssociatedWithProgression
ENSG00000116679 IVNS1ABP NonAssociatedWithProgression
ENSG00000153814 JAZF1 ---
ENSG00000177606 JUN NonAssociatedWithProgression
ENSG00000151657 KIN o+o
ENSG00000124702 KLHDC3 o--a
ENSG00000122550 KLHL7 o+o
ENSG00000114030 KPNA1 NonAssociatedWithProgression
ENSG00000182481 KPNA2 o--a
ENSG00000102753 KPNA3 NonAssociatedWithProgression
ENSG00000108424 KPNB1 o--a
ENSG00000111615 KRR1 o--b
ENSG00000143815 LBR +oo
ENSG00000174106 LEMD3 +-o
ENSG00000174405 LIG4 -+o
ENSG00000113368 LMNB1 o--b
ENSG00000143013 LMO4 -+o
ENSG00000077454 LRCH4 ---
ENSG00000138095 LRPPRC NonAssociatedWithProgression
ENSG00000130520 LSM4 o--a
ENSG00000164167 LSM6 NonAssociatedWithProgression
ENSG00000145220 LYAR o--b
ENSG00000015479 MATR3 -o-
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
ENSG00000115364 MRPL19 NonAssociatedWithProgression
ENSG00000095002 MSH2 +oo
ENSG00000116062 MSH6 o--a
ENSG00000132382 MYBBP1A o--b
ENSG00000187109 NAP1L1 +-o
ENSG00000205531 NAP1L4 ---
ENSG00000141562 NARF NonAssociatedWithProgression
ENSG00000104320 NBN 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-+
ENSG00000141458 NPC1 o++b
ENSG00000181163 NPM1 o--b
ENSG00000137404 NRM o--a
ENSG00000037474 NSUN2 o--a
ENSG00000167005 NUDT21 NonAssociatedWithProgression
ENSG00000083635 NUFIP1 NonAssociatedWithProgression
ENSG00000111581 NUP107 -+o
ENSG00000069248 NUP133 o+-
ENSG00000124789 NUP153 o+-
ENSG00000030066 NUP160 NonAssociatedWithProgression
ENSG00000126883 NUP214 NonAssociatedWithProgression
ENSG00000093000 NUP50 NonAssociatedWithProgression
ENSG00000138750 NUP54 o-o
ENSG00000213024 NUP62 o--a
ENSG00000108559 NUP88 NonAssociatedWithProgression
ENSG00000110713 NUP98 o--a
ENSG00000102898 NUTF2 --o
ENSG00000132661 NXT1 o--b
ENSG00000114026 OGG1 o--a
ENSG00000104147 OIP5 -oo
ENSG00000145730 PAM oo+
ENSG00000143799 PARP1 o--b
ENSG00000156374 PCGF6 o+o
ENSG00000090470 PDCD7 NonAssociatedWithProgression
ENSG00000167085 PHB NonAssociatedWithProgression
ENSG00000109118 PHF12 o--a
ENSG00000135365 PHF21A ---
ENSG00000100410 PHF5A o--b
ENSG00000140451 PIF1 ---
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
ENSG00000171960 PPIH o-o
ENSG00000108819 PPP1R9B -+o
ENSG00000165630 PRPF18 NonAssociatedWithProgression
ENSG00000105618 PRPF31 NonAssociatedWithProgression
ENSG00000174231 PRPF8 o--b
ENSG00000080815 PSEN1 o-o
ENSG00000011304 PTBP1 ---
ENSG00000110958 PTGES3 o--b
ENSG00000179950 PUF60 o--b
ENSG00000185129 PURA ---
ENSG00000146676 PURB o--a
ENSG00000113522 RAD50 NonAssociatedWithProgression
ENSG00000051180 RAD51 NonAssociatedWithProgression
ENSG00000101146 RAE1 -o-
ENSG00000125970 RALY o--a
ENSG00000153201 RANBP2 o+o
ENSG00000100401 RANGAP1 o-o
ENSG00000139687 RB1 NonAssociatedWithProgression
ENSG00000239306 RBM14 o--a
ENSG00000131051 RBM39 o--b
ENSG00000168214 RBPJ o--b
ENSG00000180198 RCC1 o--a
ENSG00000173039 RELA o--a
ENSG00000214022 REPIN1 o--a
ENSG00000042445 RETSAT oo+
ENSG00000148300 REXO4 o--b
ENSG00000117748 RPA2 oo-
ENSG00000106399 RPA3 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
ENSG00000115310 RTN4 +oo
ENSG00000175792 RUVBL1 ---
ENSG00000183207 RUVBL2 o--a
ENSG00000150459 SAP18 o-o
ENSG00000164105 SAP30 o++b
ENSG00000136193 SCRN1 --o
ENSG00000198301 SDAD1 o--a
ENSG00000163904 SENP2 o--a
ENSG00000107290 SETX o+o
ENSG00000168066 SF1 o-o
ENSG00000099995 SF3A1 o+-
ENSG00000104897 SF3A2 o--b
ENSG00000183431 SF3A3 NonAssociatedWithProgression
ENSG00000087365 SF3B2 NonAssociatedWithProgression
ENSG00000189091 SF3B3 NonAssociatedWithProgression
ENSG00000143368 SF3B4 o--b
ENSG00000127922 SHFM1 -+o
ENSG00000092208 SIP1 NonAssociatedWithProgression
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
ENSG00000072501 SMC1A o--a
ENSG00000136824 SMC2 -+o
ENSG00000108055 SMC3 NonAssociatedWithProgression
ENSG00000070366 SMG6 ---
ENSG00000119953 SMNDC1 +oo
ENSG00000123415 SMUG1 NonAssociatedWithProgression
ENSG00000165684 SNAPC4 o--b
ENSG00000077312 SNRPA o--a
ENSG00000131876 SNRPA1 o--b
ENSG00000125835 SNRPB o--a
ENSG00000125870 SNRPB2 NonAssociatedWithProgression
ENSG00000124562 SNRPC o--a
ENSG00000167088 SNRPD1 o--a
ENSG00000125743 SNRPD2 o--a
ENSG00000100028 SNRPD3 o-o
ENSG00000143977 SNRPG o+-
ENSG00000128739 SNRPN o-o
ENSG00000100603 SNW1 NonAssociatedWithProgression
ENSG00000067066 SP100 o++b
ENSG00000115306 SPTBN1 oo-
ENSG00000160460 SPTBN4 NonAssociatedWithProgression
ENSG00000072310 SREBF1 o--a
ENSG00000167881 SRP68 o-+
ENSG00000066923 STAG3 o--b
ENSG00000113387 SUB1 +-o
ENSG00000111707 SUDS3 o--a
ENSG00000116030 SUMO1 NonAssociatedWithProgression
ENSG00000148296 SURF6 NonAssociatedWithProgression
ENSG00000101945 SUV39H1 o--a
ENSG00000178691 SUZ12 o--b
ENSG00000161860 SYCE2 o--a
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+
ENSG00000166848 TERF2IP o--b
ENSG00000100109 TFIP11 +-o
ENSG00000173451 THAP2 -+o
ENSG00000054118 THRAP3 o--a
ENSG00000105197 TIMM50 ---
ENSG00000075131 TIPIN NonAssociatedWithProgression
ENSG00000058804 TMEM48 NonAssociatedWithProgression
ENSG00000120802 TMPO -o-
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
ENSG00000047410 TPR o+-
ENSG00000204713 TRIM27 o--a
ENSG00000196367 TRRAP o-o
ENSG00000184205 TSPYL2 o--b
ENSG00000116830 TTF2 oo+
ENSG00000131462 TUBG1 --o
ENSG00000141759 TXNL4A NonAssociatedWithProgression
ENSG00000160201 U2AF1 NonAssociatedWithProgression
ENSG00000063244 U2AF2 ---
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
ENSG00000146457 WTAP o-o
ENSG00000082898 XPO1 o-o
ENSG00000130227 XPO7 o--b
ENSG00000152422 XRCC4 o++a
ENSG00000196419 XRCC6 o--b
ENSG00000088930 XRN2 NonAssociatedWithProgression
ENSG00000127337 YEATS4 o-o
ENSG00000214717 ZBED1 ---
ENSG00000139168 ZCRB1 o++b
ENSG00000100319 ZMAT5 ---
ENSG00000122515 ZMIZ2 o--b
ENSG00000163848 ZNF148 NonAssociatedWithProgression
ENSG00000179456 ZNF238 o-o
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