PEACHi
GeneSet REGULATION_OF_TRANSCRIPTIONDNA_DEPENDENT (GO_-_Biological_Process.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o--b -2.9 0.04823 226.0 47.0 31.22
DownRegulated -4.4 0.0015 226.0 161.0 133.46
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
ENSG00000169129 AFAP1L2 NonAssociatedWithProgression
ENSG00000132694 ARHGEF11 -+o
ENSG00000117713 ARID1A o--b
ENSG00000032219 ARID4A o-+
ENSG00000133794 ARNTL NonAssociatedWithProgression
ENSG00000128272 ATF4 o--b
ENSG00000169136 ATF5 ---
ENSG00000118217 ATF6 o--a
ENSG00000170653 ATF7 ---
ENSG00000171681 ATF7IP ---
ENSG00000085224 ATRX -oo
ENSG00000142867 BCL10 o+o
ENSG00000113916 BCL6 +-o
ENSG00000183337 BCOR o--a
ENSG00000117475 BLZF1 NonAssociatedWithProgression
ENSG00000171634 BPTF NonAssociatedWithProgression
ENSG00000012048 BRCA1 NonAssociatedWithProgression
ENSG00000166164 BRD7 o--a
ENSG00000112983 BRD8 o-+
ENSG00000106245 BUD31 -o-
ENSG00000105176 C19orf2 o+-
ENSG00000179218 CALR ---
ENSG00000100211 CBY1 NonAssociatedWithProgression
ENSG00000134480 CCNH -o-
ENSG00000134058 CDK7 o+o
ENSG00000153922 CHD1 o--b
ENSG00000173575 CHD2 o--b
ENSG00000170004 CHD3 o--a
ENSG00000111642 CHD4 o--b
ENSG00000131165 CHMP1A o--a
ENSG00000144021 CIAO1 -+o
ENSG00000164442 CITED2 o++b
ENSG00000169714 CNBP o--a
ENSG00000146592 CREB5 +oo
ENSG00000005339 CREBBP NonAssociatedWithProgression
ENSG00000143162 CREG1 oo+
ENSG00000095794 CREM o+o
ENSG00000167193 CRK o+o
ENSG00000060138 CSDA -o-
ENSG00000102974 CTCF o--b
ENSG00000160967 CUX1 o+o
ENSG00000154832 CXXC1 o--a
ENSG00000204209 DAXX o--b
ENSG00000105516 DBP ---
ENSG00000175197 DDIT3 +-o
ENSG00000124795 DEK NonAssociatedWithProgression
ENSG00000130816 DNMT1 o-o
ENSG00000117505 DR1 o--a
ENSG00000175550 DRAP1 o--b
ENSG00000101412 E2F1 o--b
ENSG00000169016 E2F6 oo-
ENSG00000107223 EDF1 o--b
ENSG00000120690 ELF1 o--b
ENSG00000109381 ELF2 NonAssociatedWithProgression
ENSG00000126767 ELK1 ---
ENSG00000134759 ELP2 ---
ENSG00000134014 ELP3 o+o
ENSG00000109911 ELP4 NonAssociatedWithProgression
ENSG00000074800 ENO1 o--b
ENSG00000120616 EPC1 o--b
ENSG00000104884 ERCC2 ---
ENSG00000163161 ERCC3 o-o
ENSG00000105722 ERF ---
ENSG00000106462 EZH2 NonAssociatedWithProgression
ENSG00000170345 FOS NonAssociatedWithProgression
ENSG00000125740 FOSB +-o
ENSG00000141568 FOXK2 o--a
ENSG00000053254 FOXN3 oo+
ENSG00000118689 FOXO3 NonAssociatedWithProgression
ENSG00000184481 FOXO4 --o
ENSG00000143458 GABPB2 NonAssociatedWithProgression
ENSG00000167491 GATAD2A o--a
ENSG00000162676 GFI1 o-o
ENSG00000110768 GTF2H1 o++b
ENSG00000180353 HCLS1 o--a
ENSG00000100429 HDAC10 o--b
ENSG00000196591 HDAC2 NonAssociatedWithProgression
ENSG00000068024 HDAC4 o--b
ENSG00000147099 HDAC8 oo-
ENSG00000119969 HELLS +o+
ENSG00000186834 HEXIM1 o--a
ENSG00000168517 HEXIM2 NonAssociatedWithProgression
ENSG00000100644 HIF1A NonAssociatedWithProgression
ENSG00000100084 HIRA ---
ENSG00000137309 HMGA1 o--b
ENSG00000149948 HMGA2 oo-
ENSG00000189403 HMGB1 o--b
ENSG00000164104 HMGB2 o--b
ENSG00000128714 HOXD13 -oo
ENSG00000230989 HSBP1 NonAssociatedWithProgression
ENSG00000109854 HTATIP2 o+-
ENSG00000102241 HTATSF1 o+o
ENSG00000070061 IKBKAP NonAssociatedWithProgression
ENSG00000161405 IKZF3 -o-
ENSG00000113520 IL4 NonAssociatedWithProgression
ENSG00000143621 ILF2 o-o
ENSG00000129351 ILF3 -o-
ENSG00000168556 ING2 NonAssociatedWithProgression
ENSG00000111653 ING4 o+-
ENSG00000168310 IRF2 o++b
ENSG00000185507 IRF7 ---
ENSG00000153814 JAZF1 ---
ENSG00000171988 JMJD1C +oo
ENSG00000152409 JMY o--a
ENSG00000171223 JUNB ---
ENSG00000130522 JUND o--b
ENSG00000155090 KLF10 o--b
ENSG00000118922 KLF12 o+o
ENSG00000118263 KLF7 oo-
ENSG00000198728 LDB1 o--b
ENSG00000189067 LITAF o++a
ENSG00000161021 MAML1 o--b
ENSG00000034152 MAP2K3 ---
ENSG00000135679 MDM2 -o-
ENSG00000198625 MDM4 o-o
ENSG00000169057 MECP2 o--a
ENSG00000125686 MED1 NonAssociatedWithProgression
ENSG00000108510 MED13 NonAssociatedWithProgression
ENSG00000180182 MED14 -oo
ENSG00000124641 MED20 NonAssociatedWithProgression
ENSG00000152944 MED21 -o-
ENSG00000112282 MED23 NonAssociatedWithProgression
ENSG00000105085 MED26 o--a
ENSG00000160563 MED27 o--a
ENSG00000133997 MED6 NonAssociatedWithProgression
ENSG00000155868 MED7 NonAssociatedWithProgression
ENSG00000134138 MEIS2 o++b
ENSG00000133895 MEN1 ---
ENSG00000186260 MKL2 +o+
ENSG00000108292 MLLT6 o--a
ENSG00000155229 MMS19 o--b
ENSG00000130675 MNX1 -oo
ENSG00000183093 MRPL12 ---
ENSG00000188786 MTF1 o+-
ENSG00000123933 MXD4 ---
ENSG00000132382 MYBBP1A o--b
ENSG00000136997 MYC o--b
ENSG00000136504 MYST2 NonAssociatedWithProgression
ENSG00000099326 MZF1 o--a
ENSG00000198646 NCOA6 o--b
ENSG00000186010 NDUFA13 o-o
ENSG00000131196 NFATC1 o--b
ENSG00000072736 NFATC3 o--a
ENSG00000077150 NFKB2 NonAssociatedWithProgression
ENSG00000086102 NFX1 NonAssociatedWithProgression
ENSG00000001167 NFYA NonAssociatedWithProgression
ENSG00000120837 NFYB o-o
ENSG00000066136 NFYC NonAssociatedWithProgression
ENSG00000011052 NME2 NonAssociatedWithProgression
ENSG00000134250 NOTCH2 o-o
ENSG00000170485 NPAS2 o-+
ENSG00000174738 NR1D2 NonAssociatedWithProgression
ENSG00000177463 NR2C2 NonAssociatedWithProgression
ENSG00000106459 NRF1 NonAssociatedWithProgression
ENSG00000180530 NRIP1 o++a
ENSG00000165671 NSD1 NonAssociatedWithProgression
ENSG00000083635 NUFIP1 NonAssociatedWithProgression
ENSG00000170515 PA2G4 NonAssociatedWithProgression
ENSG00000100105 PATZ1 o--a
ENSG00000177425 PAWR o++b
ENSG00000167081 PBX3 NonAssociatedWithProgression
ENSG00000105717 PBX4 NonAssociatedWithProgression
ENSG00000132570 PCBD2 -oo
ENSG00000142655 PEX14 o++b
ENSG00000123349 PFDN5 NonAssociatedWithProgression
ENSG00000109118 PHF12 o--a
ENSG00000135365 PHF21A ---
ENSG00000100410 PHF5A o--b
ENSG00000118495 PLAGL1 NonAssociatedWithProgression
ENSG00000177700 POLR2L o-o
ENSG00000186141 POLR3C ---
ENSG00000113356 POLR3G -+o
ENSG00000152192 POU4F1 oo+
ENSG00000112033 PPARD ---
ENSG00000155846 PPARGC1B NonAssociatedWithProgression
ENSG00000102103 PQBP1 ---
ENSG00000138073 PREB o--a
ENSG00000108946 PRKAR1A o+-
ENSG00000101161 PRPF6 o-o
ENSG00000139687 RB1 NonAssociatedWithProgression
ENSG00000146587 RBAK NonAssociatedWithProgression
ENSG00000101773 RBBP8 NonAssociatedWithProgression
ENSG00000239306 RBM14 o--a
ENSG00000168214 RBPJ o--b
ENSG00000084093 REST NonAssociatedWithProgression
ENSG00000013561 RNF14 NonAssociatedWithProgression
ENSG00000063978 RNF4 NonAssociatedWithProgression
ENSG00000198963 RORB NonAssociatedWithProgression
ENSG00000089009 RPL6 o--b
ENSG00000162302 RPS6KA4 o--b
ENSG00000100784 RPS6KA5 NonAssociatedWithProgression
ENSG00000124782 RREB1 NonAssociatedWithProgression
ENSG00000048649 RSF1 +-o
ENSG00000159216 RUNX1 o--b
ENSG00000175792 RUVBL1 ---
ENSG00000186350 RXRA ---
ENSG00000163602 RYBP -o-
ENSG00000150459 SAP18 o-o
ENSG00000114650 SCAP ---
ENSG00000169375 SIN3A o--b
ENSG00000096717 SIRT1 +-o
ENSG00000124523 SIRT5 --o
ENSG00000101082 SLA2 o+o
ENSG00000125520 SLC2A4RG o-o
ENSG00000175387 SMAD2 NonAssociatedWithProgression
ENSG00000166949 SMAD3 NonAssociatedWithProgression
ENSG00000141646 SMAD4 o--b
ENSG00000080503 SMARCA2 NonAssociatedWithProgression
ENSG00000138375 SMARCAL1 -+o
ENSG00000099956 SMARCB1 ---
ENSG00000173473 SMARCC1 o--a
ENSG00000139613 SMARCC2 --o
ENSG00000066117 SMARCD1 NonAssociatedWithProgression
ENSG00000108604 SMARCD2 o--b
ENSG00000082014 SMARCD3 +oo
ENSG00000073584 SMARCE1 -oo
ENSG00000159210 SNF8 o--a
ENSG00000100603 SNW1 NonAssociatedWithProgression
ENSG00000112096 SOD2 o++b
ENSG00000185591 SP1 o--a
ENSG00000067066 SP100 o++b
ENSG00000167182 SP2 +oo
ENSG00000172845 SP3 NonAssociatedWithProgression
ENSG00000105866 SP4 NonAssociatedWithProgression
ENSG00000161011 SQSTM1 ---
ENSG00000080603 SRCAP o--b
ENSG00000072310 SREBF1 o--a
ENSG00000198911 SREBF2 ---
ENSG00000168610 STAT3 o--b
ENSG00000113387 SUB1 +-o
ENSG00000107882 SUFU o--b
ENSG00000196284 SUPT3H ---
ENSG00000213246 SUPT4H1 o--a
ENSG00000196235 SUPT5H o--b
ENSG00000162227 TAF6L ---
ENSG00000137413 TAF8 NonAssociatedWithProgression
ENSG00000059588 TARBP1 -+o
ENSG00000139546 TARBP2 o-o
ENSG00000172465 TCEAL1 oo+
ENSG00000154582 TCEB1 NonAssociatedWithProgression
ENSG00000011007 TCEB3 NonAssociatedWithProgression
ENSG00000140262 TCF12 o--a
ENSG00000137310 TCF19 o-+
ENSG00000141002 TCF25 o-o
ENSG00000081059 TCF7 o+-
ENSG00000148737 TCF7L2 NonAssociatedWithProgression
ENSG00000101190 TCFL5 o--a
ENSG00000108064 TFAM NonAssociatedWithProgression
ENSG00000087510 TFAP2C o--a
ENSG00000090447 TFAP4 o--b
ENSG00000198176 TFDP1 -o-
ENSG00000105329 TGFB1 o--a
ENSG00000177426 TGIF1 o+o
ENSG00000054118 THRAP3 o--a
ENSG00000151923 TIAL1 o+o
ENSG00000144747 TMF1 o+o
ENSG00000067182 TNFRSF1A NonAssociatedWithProgression
ENSG00000141510 TP53 o--a
ENSG00000182606 TRAK1 oo+
ENSG00000196459 TRAPPC2 o++b
ENSG00000124496 TRERF1 --o
ENSG00000204713 TRIM27 o--a
ENSG00000130726 TRIM28 o--a
ENSG00000157514 TSC22D3 +-o
ENSG00000244687 UBE2V1 oo-
ENSG00000118900 UBN1 o--b
ENSG00000153560 UBP1 o-+
ENSG00000108312 UBTF o--a
ENSG00000034063 UHRF1 o--b
ENSG00000136451 VEZF1 NonAssociatedWithProgression
ENSG00000134086 VHL ---
ENSG00000119541 VPS4B NonAssociatedWithProgression
ENSG00000163159 VPS72 o--b
ENSG00000196419 XRCC6 o--b
ENSG00000100811 YY1 o--b
ENSG00000148516 ZEB1 oo-
ENSG00000140836 ZFHX3 o++a
ENSG00000198081 ZFP161 NonAssociatedWithProgression
ENSG00000165156 ZHX1 NonAssociatedWithProgression
ENSG00000178764 ZHX2 NonAssociatedWithProgression
ENSG00000174306 ZHX3 ---
ENSG00000122515 ZMIZ2 o--b
ENSG00000015171 ZMYND11 NonAssociatedWithProgression
ENSG00000196646 ZNF136 NonAssociatedWithProgression
ENSG00000166478 ZNF143 o+o
ENSG00000167635 ZNF146 +o+
ENSG00000163848 ZNF148 NonAssociatedWithProgression
ENSG00000103343 ZNF174 o++b
ENSG00000188629 ZNF177 -+o
ENSG00000136870 ZNF189 +o+
ENSG00000166261 ZNF202 ---
ENSG00000179456 ZNF238 o-o
ENSG00000213096 ZNF254 NonAssociatedWithProgression
ENSG00000006194 ZNF263 o--a
ENSG00000171606 ZNF274 o--a
ENSG00000162702 ZNF281 o+o
ENSG00000170265 ZNF282 o--b
ENSG00000169131 ZNF354A o-o
ENSG00000165244 ZNF367 NonAssociatedWithProgression
ENSG00000124459 ZNF45 o+o
ENSG00000065029 ZNF76 NonAssociatedWithProgression
ENSG00000108278 ZNHIT3 o-o