PEACHi
GeneSet Chromosome Maintenance (Pathways_-_Reactome.gmt.txt) is enriched in the following clusters
Cluster log(P) Qvalue Observed in Background Observed in Cluster Expected in Cluster
o--b -2.5 0.03236 62.0 16.0 8.57
oo- -2.2 0.04432 62.0 4.0 1.18
DownRegulated -3.2 0.01226 62.0 48.0 36.61
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
ENSG00000102977 ACD o+-
ENSG00000175054 ATR NonAssociatedWithProgression
ENSG00000012048 BRCA1 NonAssociatedWithProgression
ENSG00000115163 CENPA o-o
ENSG00000153044 CENPH oo-
ENSG00000102384 CENPI o-+
ENSG00000123219 CENPK o+o
ENSG00000166451 CENPN o+-
ENSG00000138092 CENPO o-+
ENSG00000188312 CENPP -oo
ENSG00000031691 CENPQ o--b
ENSG00000101191 DIDO1 o-o
ENSG00000130826 DKC1 o--b
ENSG00000138346 DNA2 o++b
ENSG00000168496 FEN1 NonAssociatedWithProgression
ENSG00000188486 H2AFX ---
ENSG00000164032 H2AFZ o-o
ENSG00000137259 HIST1H2AB oo-
ENSG00000180573 HIST1H2AC NonAssociatedWithProgression
ENSG00000196226 HIST1H2BB o--b
ENSG00000158373 HIST1H2BD NonAssociatedWithProgression
ENSG00000197459 HIST1H2BH oo-
ENSG00000196176 HIST1H4A ---
ENSG00000183558 HIST2H2AA3 o--b
ENSG00000184678 HIST2H2BE NonAssociatedWithProgression
ENSG00000123485 HJURP o-o
ENSG00000142856 ITGB3BP -+o
ENSG00000105486 LIG1 o--a
ENSG00000113368 LMNB1 o--b
ENSG00000151725 MLF1IP NonAssociatedWithProgression
ENSG00000145912 NHP2 o-o
ENSG00000181163 NPM1 o--b
ENSG00000104147 OIP5 -oo
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-
ENSG00000128513 POT1 o++b
ENSG00000198056 PRIM1 ---
ENSG00000146143 PRIM2 o-+
ENSG00000164754 RAD21 o--b
ENSG00000162521 RBBP4 NonAssociatedWithProgression
ENSG00000102054 RBBP7 o-o
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
ENSG00000048649 RSF1 +-o
ENSG00000175792 RUVBL1 ---
ENSG00000183207 RUVBL2 o--a
ENSG00000072501 SMC1A o--a
ENSG00000108055 SMC3 NonAssociatedWithProgression
ENSG00000118007 STAG1 NonAssociatedWithProgression
ENSG00000101972 STAG2 o--b
ENSG00000066923 STAG3 o--b
ENSG00000164828 SUN1 o--a
ENSG00000100242 SUN2 o-o
ENSG00000161860 SYCE2 o--a
ENSG00000131018 SYNE1 o++b
ENSG00000054654 SYNE2 o--b
ENSG00000147601 TERF1 NonAssociatedWithProgression
ENSG00000132604 TERF2 o--a
ENSG00000166848 TERF2IP o--b
ENSG00000092330 TINF2 o--b
ENSG00000103275 UBE2I o--a
ENSG00000141499 WRAP53 ---