PEACHi
GeneSet DNA_REPLICATION (GO_-_Biological_Process.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o--b -3.9 0.02124 61.0 19.0 8.43
DownRegulated -3.5 0.01004 61.0 48.0 36.02
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
ENSG00000097007 ABL1 o--a
ENSG00000175054 ATR NonAssociatedWithProgression
ENSG00000115355 CCDC88A +o+
ENSG00000094804 CDC6 NonAssociatedWithProgression
ENSG00000123374 CDK2 oo-
ENSG00000111328 CDK2AP1 --o
ENSG00000006634 DBF4 ---
ENSG00000130826 DKC1 o--b
ENSG00000128951 DUT o--a
ENSG00000174371 EXO1 o++b
ENSG00000112312 GMNN NonAssociatedWithProgression
ENSG00000107937 GTPBP4 o--b
ENSG00000164104 HMGB2 o--b
ENSG00000132740 IGHMBP2 ---
ENSG00000174943 KCTD13 o--a
ENSG00000151657 KIN o+o
ENSG00000073111 MCM2 o--a
ENSG00000160294 MCM3AP NonAssociatedWithProgression
ENSG00000100297 MCM5 o--b
ENSG00000166508 MCM7 o--b
ENSG00000076242 MLH1 o--b
ENSG00000095002 MSH2 +oo
ENSG00000204410 MSH5 NonAssociatedWithProgression
ENSG00000116062 MSH6 o--a
ENSG00000132781 MUTYH o--a
ENSG00000136504 MYST2 NonAssociatedWithProgression
ENSG00000159593 NAE1 o+o
ENSG00000187109 NAP1L1 +-o
ENSG00000132780 NASP o--a
ENSG00000104320 NBN NonAssociatedWithProgression
ENSG00000186575 NF2 o--b
ENSG00000198000 NOL8 -oo
ENSG00000110713 NUP98 o--a
ENSG00000064933 PMS1 -+o
ENSG00000122512 PMS2 NonAssociatedWithProgression
ENSG00000101868 POLA1 NonAssociatedWithProgression
ENSG00000070501 POLB o+-
ENSG00000062822 POLD1 o--a
ENSG00000106628 POLD2 o--b
ENSG00000175482 POLD4 --o
ENSG00000177084 POLE o--b
ENSG00000100479 POLE2 -o-
ENSG00000148229 POLE3 o--a
ENSG00000136480 POLG2 NonAssociatedWithProgression
ENSG00000128513 POT1 o++b
ENSG00000198056 PRIM1 ---
ENSG00000146143 PRIM2 o-+
ENSG00000159335 PTMS o--a
ENSG00000185129 PURA ---
ENSG00000152942 RAD17 o--a
ENSG00000113522 RAD50 NonAssociatedWithProgression
ENSG00000051180 RAD51 NonAssociatedWithProgression
ENSG00000172613 RAD9A o--b
ENSG00000153250 RBMS1 o++b
ENSG00000214022 REPIN1 o--a
ENSG00000135945 REV1 ---
ENSG00000009413 REV3L o-o
ENSG00000035928 RFC1 o--b
ENSG00000133119 RFC3 -oo
ENSG00000163918 RFC4 o--a
ENSG00000104889 RNASEH2A o--b
ENSG00000117748 RPA2 oo-
ENSG00000106399 RPA3 o++b
ENSG00000129197 RPAIN o+o
ENSG00000163191 S100A11 oo-
ENSG00000119335 SET o--b
ENSG00000154144 TBRG1 o--b
ENSG00000132604 TERF2 o--a
ENSG00000166848 TERF2IP o--b
ENSG00000108064 TFAM NonAssociatedWithProgression
ENSG00000092330 TINF2 o--b
ENSG00000075131 TIPIN NonAssociatedWithProgression
ENSG00000184205 TSPYL2 o--b
ENSG00000005007 UPF1 o--b
ENSG00000124535 WRNIP1 o--b