PEACHi
GeneSet mRNA Processing (Pathways_-_Reactome.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
oo- -2.4 0.03389 105.0 6.0 2.0
o+- -2.7 0.02336 105.0 9.0 3.4
DownRegulated -3.8 0.00304 105.0 79.0 62.01
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
ENSG00000160710 ADAR o--a
ENSG00000197381 ADARB1 o++b
ENSG00000060339 CCAR1 o--b
ENSG00000134480 CCNH -o-
ENSG00000169217 CD2BP2 o--a
ENSG00000168438 CDC40 -oo
ENSG00000134058 CDK7 o+o
ENSG00000172409 CLP1 o--a
ENSG00000071894 CPSF1 o--a
ENSG00000165934 CPSF2 NonAssociatedWithProgression
ENSG00000149532 CPSF7 o--a
ENSG00000101138 CSTF1 o++b
ENSG00000101811 CSTF2 o-o
ENSG00000176102 CSTF3 NonAssociatedWithProgression
ENSG00000174243 DDX23 -o-
ENSG00000140829 DHX38 o--a
ENSG00000135829 DHX9 +-o
ENSG00000126698 DNAJC8 NonAssociatedWithProgression
ENSG00000108883 EFTUD2 -o-
ENSG00000104884 ERCC2 ---
ENSG00000163161 ERCC3 o-o
ENSG00000089280 FUS o+-
ENSG00000125651 GTF2F1 o--a
ENSG00000188342 GTF2F2 NonAssociatedWithProgression
ENSG00000110768 GTF2H1 o++b
ENSG00000145736 GTF2H2 o++b
ENSG00000111358 GTF2H3 NonAssociatedWithProgression
ENSG00000177733 HNRNPA0 NonAssociatedWithProgression
ENSG00000135486 HNRNPA1 o+-
ENSG00000122566 HNRNPA2B1 oo-
ENSG00000170144 HNRNPA3 ---
ENSG00000092199 HNRNPC o-o
ENSG00000138668 HNRNPD oo-
ENSG00000169813 HNRNPF NonAssociatedWithProgression
ENSG00000169045 HNRNPH1 +-o
ENSG00000126945 HNRNPH2 o-+
ENSG00000165119 HNRNPK ---
ENSG00000104824 HNRNPL NonAssociatedWithProgression
ENSG00000099783 HNRNPM o-o
ENSG00000125944 HNRNPR NonAssociatedWithProgression
ENSG00000153187 HNRNPU o--b
ENSG00000105323 HNRNPUL1 o--b
ENSG00000181817 LSM10 NonAssociatedWithProgression
ENSG00000155858 LSM11 NonAssociatedWithProgression
ENSG00000204392 LSM2 --o
ENSG00000162385 MAGOH o--b
ENSG00000165819 METTL3 -+o
ENSG00000136937 NCBP1 o+-
ENSG00000114503 NCBP2 o--b
ENSG00000086102 NFX1 NonAssociatedWithProgression
ENSG00000100138 NHP2L1 NonAssociatedWithProgression
ENSG00000167005 NUDT21 NonAssociatedWithProgression
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+-
ENSG00000162231 NXF1 o--a
ENSG00000100836 PABPN1 o--a
ENSG00000090060 PAPOLA NonAssociatedWithProgression
ENSG00000169564 PCBP1 NonAssociatedWithProgression
ENSG00000197111 PCBP2 o--a
ENSG00000165494 PCF11 oo-
ENSG00000100410 PHF5A o--b
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
ENSG00000196313 POM121 o--b
ENSG00000136875 PRPF4 NonAssociatedWithProgression
ENSG00000101161 PRPF6 o-o
ENSG00000174231 PRPF8 o--b
ENSG00000011304 PTBP1 ---
ENSG00000101146 RAE1 -o-
ENSG00000153201 RANBP2 o+o
ENSG00000003756 RBM5 o-o
ENSG00000131795 RBM8A +-o
ENSG00000147274 RBMX oo-
ENSG00000111880 RNGTT NonAssociatedWithProgression
ENSG00000101654 RNMT NonAssociatedWithProgression
ENSG00000205937 RNPS1 NonAssociatedWithProgression
ENSG00000085415 SEH1L o-o
ENSG00000099995 SF3A1 o+-
ENSG00000104897 SF3A2 o--b
ENSG00000183431 SF3A3 NonAssociatedWithProgression
ENSG00000115524 SF3B1 o++b
ENSG00000087365 SF3B2 NonAssociatedWithProgression
ENSG00000189091 SF3B3 NonAssociatedWithProgression
ENSG00000143368 SF3B4 o--b
ENSG00000169976 SF3B5 o--a
ENSG00000163950 SLBP NonAssociatedWithProgression
ENSG00000072501 SMC1A o--a
ENSG00000144028 SNRNP200 NonAssociatedWithProgression
ENSG00000060688 SNRNP40 ---
ENSG00000104852 SNRNP70 o--b
ENSG00000077312 SNRPA o--a
ENSG00000131876 SNRPA1 o--b
ENSG00000125835 SNRPB o--a
ENSG00000125870 SNRPB2 NonAssociatedWithProgression
ENSG00000167088 SNRPD1 o--a
ENSG00000125743 SNRPD2 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-
ENSG00000196235 SUPT5H o--b
ENSG00000183684 THOC4 -o-
ENSG00000047410 TPR o+-
ENSG00000141759 TXNL4A NonAssociatedWithProgression
ENSG00000160201 U2AF1 NonAssociatedWithProgression
ENSG00000063244 U2AF2 ---
ENSG00000125351 UPF3B NonAssociatedWithProgression
ENSG00000065978 YBX1 o--a
ENSG00000142528 ZNF473 o--b