PEACHi
GeneSet S Phase (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 0.035 81.0 5.0 1.54
o+o -4.2 0.00492 81.0 14.0 4.79
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
ENSG00000145386 CCNA2 o--b
ENSG00000105173 CCNE1 o--b
ENSG00000175305 CCNE2 NonAssociatedWithProgression
ENSG00000134480 CCNH -o-
ENSG00000164045 CDC25A o--b
ENSG00000101224 CDC25B o--a
ENSG00000093009 CDC45 o++b
ENSG00000094804 CDC6 NonAssociatedWithProgression
ENSG00000123374 CDK2 oo-
ENSG00000135446 CDK4 o--a
ENSG00000134058 CDK7 o+o
ENSG00000124762 CDKN1A oo-
ENSG00000111276 CDKN1B +o+
ENSG00000173207 CKS1B NonAssociatedWithProgression
ENSG00000055130 CUL1 o++a
ENSG00000138346 DNA2 o++b
ENSG00000168496 FEN1 NonAssociatedWithProgression
ENSG00000101003 GINS1 o+o
ENSG00000147536 GINS4 o-+
ENSG00000105486 LIG1 o--a
ENSG00000125952 MAX NonAssociatedWithProgression
ENSG00000073111 MCM2 o--a
ENSG00000104738 MCM4 o--a
ENSG00000100297 MCM5 o--b
ENSG00000076003 MCM6 o--a
ENSG00000166508 MCM7 o--b
ENSG00000125885 MCM8 oo+
ENSG00000136997 MYC o--b
ENSG00000085840 ORC1 o+o
ENSG00000115942 ORC2 o++b
ENSG00000135336 ORC3 o+o
ENSG00000115947 ORC4 o+-
ENSG00000164815 ORC5 o+o
ENSG00000091651 ORC6 o--a
ENSG00000132646 PCNA -o-
ENSG00000101868 POLA1 NonAssociatedWithProgression
ENSG00000014138 POLA2 o++b
ENSG00000062822 POLD1 o--a
ENSG00000106628 POLD2 o--b
ENSG00000077514 POLD3 o+o
ENSG00000175482 POLD4 --o
ENSG00000177084 POLE o--b
ENSG00000100479 POLE2 -o-
ENSG00000198056 PRIM1 ---
ENSG00000146143 PRIM2 o-+
ENSG00000129084 PSMA1 o--a
ENSG00000106588 PSMA2 o+o
ENSG00000100567 PSMA3 o+o
ENSG00000041357 PSMA4 -+o
ENSG00000143106 PSMA5 o--a
ENSG00000100902 PSMA6 NonAssociatedWithProgression
ENSG00000101182 PSMA7 -+o
ENSG00000008018 PSMB1 o-o
ENSG00000126067 PSMB2 oo-
ENSG00000108294 PSMB3 -+o
ENSG00000159377 PSMB4 NonAssociatedWithProgression
ENSG00000100804 PSMB5 o--b
ENSG00000142507 PSMB6 o-o
ENSG00000136930 PSMB7 NonAssociatedWithProgression
ENSG00000204264 PSMB8 o--b
ENSG00000240065 PSMB9 o-o
ENSG00000100764 PSMC1 NonAssociatedWithProgression
ENSG00000161057 PSMC2 o+o
ENSG00000165916 PSMC3 o-o
ENSG00000013275 PSMC4 NonAssociatedWithProgression
ENSG00000087191 PSMC5 -+o
ENSG00000100519 PSMC6 o+o
ENSG00000173692 PSMD1 NonAssociatedWithProgression
ENSG00000101843 PSMD10 o+o
ENSG00000108671 PSMD11 NonAssociatedWithProgression
ENSG00000197170 PSMD12 oo-
ENSG00000185627 PSMD13 o--b
ENSG00000115233 PSMD14 o+o
ENSG00000175166 PSMD2 ---
ENSG00000108344 PSMD3 ---
ENSG00000159352 PSMD4 NonAssociatedWithProgression
ENSG00000095261 PSMD5 o++b
ENSG00000163636 PSMD6 o+o
ENSG00000099341 PSMD8 o--b
ENSG00000110801 PSMD9 o--b
ENSG00000100911 PSME2 NonAssociatedWithProgression
ENSG00000131467 PSME3 o-o
ENSG00000068878 PSME4 o--b
ENSG00000125818 PSMF1 o-+
ENSG00000139687 RB1 NonAssociatedWithProgression
ENSG00000035928 RFC1 o--b
ENSG00000049541 RFC2 o--b
ENSG00000133119 RFC3 -oo
ENSG00000163918 RFC4 o--a
ENSG00000111445 RFC5 -oo
ENSG00000117748 RPA2 oo-
ENSG00000106399 RPA3 o++b
ENSG00000143947 RPS27A o+o
ENSG00000113558 SKP1 ---
ENSG00000145604 SKP2 o++b
ENSG00000221983 UBA52 o--a
ENSG00000170315 UBB ---
ENSG00000166483 WEE1 NonAssociatedWithProgression