PEACHi
GeneSet Transcription (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 -2.3 0.03945 99.0 23.0 14.06
oo- -2.6 0.02804 99.0 6.0 1.88
DownRegulated -3.8 0.00291 99.0 75.0 58.46
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
ENSG00000145734 BDP1 o+o
ENSG00000185024 BRF1 ---
ENSG00000122565 CBX3 o--a
ENSG00000134480 CCNH -o-
ENSG00000082258 CCNT2 o-o
ENSG00000168438 CDC40 -oo
ENSG00000134058 CDK7 o+o
ENSG00000172409 CLP1 o--a
ENSG00000188986 COBRA1 o--b
ENSG00000071894 CPSF1 o--a
ENSG00000165934 CPSF2 NonAssociatedWithProgression
ENSG00000149532 CPSF7 o--a
ENSG00000101138 CSTF1 o++b
ENSG00000101811 CSTF2 o-o
ENSG00000176102 CSTF3 NonAssociatedWithProgression
ENSG00000060069 CTDP1 ---
ENSG00000140829 DHX38 o--a
ENSG00000204371 EHMT2 o--b
ENSG00000105656 ELL o--a
ENSG00000104884 ERCC2 ---
ENSG00000163161 ERCC3 o-o
ENSG00000140307 GTF2A2 NonAssociatedWithProgression
ENSG00000137947 GTF2B NonAssociatedWithProgression
ENSG00000153767 GTF2E1 o++b
ENSG00000197265 GTF2E2 NonAssociatedWithProgression
ENSG00000125651 GTF2F1 o--a
ENSG00000188342 GTF2F2 NonAssociatedWithProgression
ENSG00000110768 GTF2H1 o++b
ENSG00000145736 GTF2H2 o++b
ENSG00000111358 GTF2H3 NonAssociatedWithProgression
ENSG00000122034 GTF3A o--a
ENSG00000077235 GTF3C1 o--b
ENSG00000115207 GTF3C2 NonAssociatedWithProgression
ENSG00000119041 GTF3C3 -oo
ENSG00000125484 GTF3C4 NonAssociatedWithProgression
ENSG00000148308 GTF3C5 o--a
ENSG00000188486 H2AFX ---
ENSG00000164032 H2AFZ o-o
ENSG00000163041 H3F3A NonAssociatedWithProgression
ENSG00000137259 HIST1H2AB oo-
ENSG00000180573 HIST1H2AC NonAssociatedWithProgression
ENSG00000196226 HIST1H2BB o--b
ENSG00000158373 HIST1H2BD NonAssociatedWithProgression
ENSG00000197459 HIST1H2BH oo-
ENSG00000196176 HIST1H4A ---
ENSG00000183558 HIST2H2AA3 o--b
ENSG00000184678 HIST2H2BE NonAssociatedWithProgression
ENSG00000114166 KAT2B NonAssociatedWithProgression
ENSG00000181817 LSM10 NonAssociatedWithProgression
ENSG00000155858 LSM11 NonAssociatedWithProgression
ENSG00000162385 MAGOH o--b
ENSG00000102882 MAPK3 o--b
ENSG00000134046 MBD2 ---
ENSG00000127989 MTERF o--a
ENSG00000136937 NCBP1 o+-
ENSG00000114503 NCBP2 o--b
ENSG00000162599 NFIA NonAssociatedWithProgression
ENSG00000147862 NFIB NonAssociatedWithProgression
ENSG00000086102 NFX1 NonAssociatedWithProgression
ENSG00000167005 NUDT21 NonAssociatedWithProgression
ENSG00000100836 PABPN1 o--a
ENSG00000090060 PAPOLA NonAssociatedWithProgression
ENSG00000165494 PCF11 oo-
ENSG00000068654 POLR1A NonAssociatedWithProgression
ENSG00000125630 POLR1B oo-
ENSG00000186184 POLR1D o--a
ENSG00000181222 POLR2A ---
ENSG00000047315 POLR2B +oo
ENSG00000102978 POLR2C NonAssociatedWithProgression
ENSG00000144231 POLR2D o--b
ENSG00000100142 POLR2F NonAssociatedWithProgression
ENSG00000168002 POLR2G NonAssociatedWithProgression
ENSG00000163882 POLR2H o-o
ENSG00000105258 POLR2I --o
ENSG00000005075 POLR2J ---
ENSG00000177700 POLR2L o-o
ENSG00000148606 POLR3A NonAssociatedWithProgression
ENSG00000013503 POLR3B -+o
ENSG00000186141 POLR3C ---
ENSG00000168495 POLR3D -+o
ENSG00000058600 POLR3E NonAssociatedWithProgression
ENSG00000132664 POLR3F o-o
ENSG00000113356 POLR3G -+o
ENSG00000121851 POLR3GL NonAssociatedWithProgression
ENSG00000100413 POLR3H o--a
ENSG00000161980 POLR3K -oo
ENSG00000143190 POU2F1 NonAssociatedWithProgression
ENSG00000131795 RBM8A +-o
ENSG00000204356 RDBP o-o
ENSG00000111880 RNGTT NonAssociatedWithProgression
ENSG00000101654 RNMT NonAssociatedWithProgression
ENSG00000205937 RNPS1 NonAssociatedWithProgression
ENSG00000085721 RRN3 o+o
ENSG00000163950 SLBP NonAssociatedWithProgression
ENSG00000104976 SNAPC2 o--a
ENSG00000164975 SNAPC3 o++b
ENSG00000165684 SNAPC4 o--b
ENSG00000174446 SNAPC5 o++a
ENSG00000125835 SNRPB o--a
ENSG00000100028 SNRPD3 o-o
ENSG00000182004 SNRPE NonAssociatedWithProgression
ENSG00000143977 SNRPG o+-
ENSG00000133226 SRRM1 o--b
ENSG00000136450 SRSF1 -o-
ENSG00000116754 SRSF11 NonAssociatedWithProgression
ENSG00000161547 SRSF2 oo-
ENSG00000112081 SRSF3 +-o
ENSG00000116350 SRSF4 o--a
ENSG00000100650 SRSF5 o--b
ENSG00000124193 SRSF6 +-o
ENSG00000115875 SRSF7 o--b
ENSG00000111786 SRSF9 -o-
ENSG00000138385 SSB NonAssociatedWithProgression
ENSG00000149136 SSRP1 o--b
ENSG00000092201 SUPT16H o--a
ENSG00000213246 SUPT4H1 o--a
ENSG00000196235 SUPT5H o--b
ENSG00000147133 TAF1 NonAssociatedWithProgression
ENSG00000166337 TAF10 o--a
ENSG00000064995 TAF11 o--b
ENSG00000120656 TAF12 o--a
ENSG00000197780 TAF13 o+o
ENSG00000115750 TAF1B oo-
ENSG00000103168 TAF1C +oo
ENSG00000130699 TAF4 o++b
ENSG00000141384 TAF4B NonAssociatedWithProgression
ENSG00000148835 TAF5 o--a
ENSG00000106290 TAF6 NonAssociatedWithProgression
ENSG00000085231 TAF9 o+o
ENSG00000112592 TBP NonAssociatedWithProgression
ENSG00000187735 TCEA1 NonAssociatedWithProgression
ENSG00000154582 TCEB1 NonAssociatedWithProgression
ENSG00000103363 TCEB2 o--a
ENSG00000011007 TCEB3 NonAssociatedWithProgression
ENSG00000108064 TFAM NonAssociatedWithProgression
ENSG00000162851 TFB2M NonAssociatedWithProgression
ENSG00000101158 TH1L o--b
ENSG00000183684 THOC4 -o-
ENSG00000125482 TTF1 o+-
ENSG00000160201 U2AF1 NonAssociatedWithProgression
ENSG00000063244 U2AF2 ---
ENSG00000108312 UBTF o--a
ENSG00000125351 UPF3B NonAssociatedWithProgression
ENSG00000185049 WHSC2 o--b
ENSG00000166478 ZNF143 o+o
ENSG00000142528 ZNF473 o--b