PEACHi
GeneSet CYTOSOL (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 -3.0 0.02106 105.0 12.0 4.81
AllGenesAssociatedWithProgression -3.5 0.01245 123.0 105.0 89.61
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
ENSG00000136754 ABI1 NonAssociatedWithProgression
ENSG00000138443 ABI2 o-o
ENSG00000122729 ACO1 o++a
ENSG00000184227 ACOT1 --o
ENSG00000243989 ACY1 ---
ENSG00000119844 AFTPH NonAssociatedWithProgression
ENSG00000110711 AIP o--a
ENSG00000118507 AKAP7 o++a
ENSG00000204673 AKT1S1 ---
ENSG00000003393 ALS2 o++b
ENSG00000164331 ANKRA2 -+o
ENSG00000120868 APAF1 o++b
ENSG00000242247 ARFGAP3 ---
ENSG00000124198 ARFGEF2 o+o
ENSG00000164144 ARFIP1 o++b
ENSG00000214435 AS3MT o++a
ENSG00000144848 ATG3 o-o
ENSG00000101844 ATG4A o++a
ENSG00000168397 ATG4B o--b
ENSG00000125703 ATG4C o++b
ENSG00000130734 ATG4D o--b
ENSG00000177556 ATOX1 o-+
ENSG00000142867 BCL10 o+o
ENSG00000015475 BID -oo
ENSG00000089685 BIRC5 ---
ENSG00000134508 CABLES1 NonAssociatedWithProgression
ENSG00000179218 CALR ---
ENSG00000171097 CCBL1 NonAssociatedWithProgression
ENSG00000115355 CCDC88A +o+
ENSG00000198707 CEP290 -oo
ENSG00000187288 CIDEC NonAssociatedWithProgression
ENSG00000129083 COPB1 o+-
ENSG00000085719 CPNE3 o+o
ENSG00000100243 CYB5R3 o-o
ENSG00000172115 CYCS o--b
ENSG00000160049 DFFA NonAssociatedWithProgression
ENSG00000102189 EEA1 NonAssociatedWithProgression
ENSG00000135766 EGLN1 o++b
ENSG00000082805 ERC1 o--a
ENSG00000092820 EZR NonAssociatedWithProgression
ENSG00000185104 FAF1 o--a
ENSG00000158169 FANCC o-o
ENSG00000184481 FOXO4 --o
ENSG00000136877 FPGS o--a
ENSG00000123159 GIPC1 o--b
ENSG00000173221 GLRX o+o
ENSG00000177885 GRB2 NonAssociatedWithProgression
ENSG00000061918 GUCY1B3 -+o
ENSG00000134248 HBXIP o++a
ENSG00000087076 HSD17B14 ---
ENSG00000166598 HSP90B1 NonAssociatedWithProgression
ENSG00000003147 ICA1 NonAssociatedWithProgression
ENSG00000073009 IKBKG --o
ENSG00000136003 ISCU o+o
ENSG00000119185 ITGB1BP1 NonAssociatedWithProgression
ENSG00000132434 LANCL2 NonAssociatedWithProgression
ENSG00000136167 LCP1 o--b
ENSG00000134333 LDHA +-o
ENSG00000130479 MAP1S o--a
ENSG00000073803 MAP3K13 o++a
ENSG00000107968 MAP3K8 o++a
ENSG00000186868 MAPT o++a
ENSG00000014641 MDH1 o+o
ENSG00000133895 MEN1 ---
ENSG00000116688 MFN2 o--b
ENSG00000124275 MTRR o+-
ENSG00000100345 MYH9 -o-
ENSG00000008130 NADK o--a
ENSG00000172915 NBEA -+o
ENSG00000244005 NFS1 NonAssociatedWithProgression
ENSG00000140939 NOL3 --o
ENSG00000141279 NPEPPS ---
ENSG00000078618 NRD1 -+o
ENSG00000070081 NUCB2 -+o
ENSG00000102898 NUTF2 --o
ENSG00000147162 OGT o-o
ENSG00000150593 PDCD4 oo-
ENSG00000163110 PDLIM5 -+o
ENSG00000127980 PEX1 +-o
ENSG00000141959 PFKL o--b
ENSG00000152556 PFKM --o
ENSG00000145675 PIK3R1 o--a
ENSG00000113575 PPP2CA o--b
ENSG00000105568 PPP2R1A o--b
ENSG00000119414 PPP6C o--b
ENSG00000131238 PPT1 +-o
ENSG00000165672 PRDX3 o+o
ENSG00000163558 PRKCI -+o
ENSG00000103490 PYCARD o--a
ENSG00000119396 RAB14 -o-
ENSG00000127328 RAB3IP o++a
ENSG00000011454 RABGAP1 o--a
ENSG00000138835 RGS3 o++a
ENSG00000111785 RIC8B NonAssociatedWithProgression
ENSG00000145425 RPS3A o-o
ENSG00000160208 RRP1B o--a
ENSG00000183207 RUVBL2 o--a
ENSG00000132330 SCLY o++a
ENSG00000100934 SEC23A o++b
ENSG00000170542 SERPINB9 o++b
ENSG00000176974 SHMT1 o--a
ENSG00000142168 SOD1 NonAssociatedWithProgression
ENSG00000090487 SPG21 --o
ENSG00000063176 SPHK2 o-o
ENSG00000161011 SQSTM1 ---
ENSG00000120438 TCP1 -o-
ENSG00000100284 TOM1 ---
ENSG00000077097 TOP2B o+o
ENSG00000144034 TPRKB o-o
ENSG00000165699 TSC1 NonAssociatedWithProgression
ENSG00000103197 TSC2 ---
ENSG00000160803 UBQLN4 o--a
ENSG00000109103 UNC119 --o
ENSG00000165280 VCP o+-
ENSG00000134086 VHL ---
ENSG00000122958 VPS26A o+o
ENSG00000151502 VPS26B NonAssociatedWithProgression
ENSG00000160948 VPS28 o-o
ENSG00000069329 VPS35 o-o
ENSG00000132612 VPS4A ---
ENSG00000085449 WDFY1 o-o
ENSG00000152422 XRCC4 o++a
ENSG00000128016 ZFP36 o--b