PEACHi
GeneSet Cell Cycle Checkpoints (Pathways_-_Reactome.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
oo- -3.9 0.00576 79.0 7.0 1.5
o+o -3.7 0.0073 79.0 13.0 4.68
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
ENSG00000153107 ANAPC1 o--a
ENSG00000164162 ANAPC10 o++b
ENSG00000141552 ANAPC11 NonAssociatedWithProgression
ENSG00000176248 ANAPC2 NonAssociatedWithProgression
ENSG00000053900 ANAPC4 NonAssociatedWithProgression
ENSG00000089053 ANAPC5 o++a
ENSG00000196510 ANAPC7 o++b
ENSG00000149311 ATM NonAssociatedWithProgression
ENSG00000175054 ATR NonAssociatedWithProgression
ENSG00000164053 ATRIP NonAssociatedWithProgression
ENSG00000156970 BUB1B +oo
ENSG00000154473 BUB3 o--a
ENSG00000134057 CCNB1 oo-
ENSG00000157456 CCNB2 oo-
ENSG00000105173 CCNE1 o--b
ENSG00000175305 CCNE2 NonAssociatedWithProgression
ENSG00000130177 CDC16 NonAssociatedWithProgression
ENSG00000094880 CDC23 NonAssociatedWithProgression
ENSG00000164045 CDC25A o--b
ENSG00000158402 CDC25C o-+
ENSG00000176386 CDC26 NonAssociatedWithProgression
ENSG00000004897 CDC27 NonAssociatedWithProgression
ENSG00000093009 CDC45 o++b
ENSG00000094804 CDC6 NonAssociatedWithProgression
ENSG00000097046 CDC7 NonAssociatedWithProgression
ENSG00000170312 CDK1 o-+
ENSG00000123374 CDK2 oo-
ENSG00000124762 CDKN1A oo-
ENSG00000111276 CDKN1B +o+
ENSG00000149554 CHEK1 o+o
ENSG00000183765 CHEK2 ---
ENSG00000006634 DBF4 ---
ENSG00000136273 HUS1 o+o
ENSG00000002822 MAD1L1 o-o
ENSG00000164109 MAD2L1 NonAssociatedWithProgression
ENSG00000065328 MCM10 NonAssociatedWithProgression
ENSG00000073111 MCM2 o--a
ENSG00000104738 MCM4 o--a
ENSG00000100297 MCM5 o--b
ENSG00000076003 MCM6 o--a
ENSG00000166508 MCM7 o--b
ENSG00000125885 MCM8 oo+
ENSG00000135679 MDM2 -o-
ENSG00000085840 ORC1 o+o
ENSG00000115942 ORC2 o++b
ENSG00000135336 ORC3 o+o
ENSG00000115947 ORC4 o+-
ENSG00000164815 ORC5 o+o
ENSG00000091651 ORC6 o--a
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-+
ENSG00000113456 RAD1 NonAssociatedWithProgression
ENSG00000152942 RAD17 o--a
ENSG00000172613 RAD9A o--b
ENSG00000049541 RFC2 o--b
ENSG00000133119 RFC3 -oo
ENSG00000163918 RFC4 o--a
ENSG00000111445 RFC5 -oo
ENSG00000143207 RFWD2 o++a
ENSG00000117748 RPA2 oo-
ENSG00000106399 RPA3 o++b
ENSG00000143947 RPS27A o+o
ENSG00000141510 TP53 o--a
ENSG00000221983 UBA52 o--a
ENSG00000170315 UBB ---
ENSG00000175063 UBE2C o-o
ENSG00000072401 UBE2D1 NonAssociatedWithProgression
ENSG00000170142 UBE2E1 o--b
ENSG00000166483 WEE1 NonAssociatedWithProgression