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Coexpression cluster:C1675

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Full id: C1675_Hodgkin_Burkitt_retinoblastoma_Reticulocytes_granulocyte_diffuse_MCF7



Phase1 CAGE Peaks

Hg19::chr12:53662049..53662061,+p2@ESPL1
Hg19::chr12:53662073..53662105,+p1@ESPL1
Hg19::chr16:89883015..89883088,-p1@FANCA
Hg19::chr19:48673552..48673578,-p2@LIG1
Hg19::chr21:47743719..47743792,-p1@C21orf58


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0051301cell division0.00408715906915419
GO:0045875negative regulation of sister chromatid cohesion0.00408715906915419
GO:0007063regulation of sister chromatid cohesion0.00408715906915419
GO:0045842positive regulation of mitotic metaphase/anaphase transition0.00408715906915419
GO:0051293establishment of spindle localization0.00408715906915419
GO:0051653spindle localization0.00408715906915419
GO:0040001establishment of mitotic spindle localization0.00408715906915419
GO:0003910DNA ligase (ATP) activity0.00474459431445905
GO:0006281DNA repair0.00474459431445905
GO:0003909DNA ligase activity0.00476807151383685
GO:0006974response to DNA damage stimulus0.00506629389735859
GO:0009719response to endogenous stimulus0.0064670891858124
GO:0007062sister chromatid cohesion0.00660116780290485
GO:0030071regulation of mitotic metaphase/anaphase transition0.00715063354999629
GO:0007091mitotic metaphase/anaphase transition0.00715063354999629
GO:0045840positive regulation of mitosis0.00715063354999629
GO:0016886ligase activity, forming phosphoric ester bonds0.00785121375196704
GO:0007049cell cycle0.0107858894254426
GO:0051656establishment of organelle localization0.0114369722282121
GO:0045787positive regulation of progression through cell cycle0.0114369722282121
GO:0000070mitotic sister chromatid segregation0.0125614912332567
GO:0000819sister chromatid segregation0.0125614912332567
GO:0051640organelle localization0.0134980059960521
GO:0000910cytokinesis0.0134980059960521
GO:0006950response to stress0.0163545176936061
GO:0006259DNA metabolic process0.0164194544395607
GO:0007059chromosome segregation0.0208051301178182
GO:0005634nucleus0.0218631855041171
GO:0007088regulation of mitosis0.0219915913189527
GO:0000226microtubule cytoskeleton organization and biogenesis0.0323303903291635
GO:0005813centrosome0.0395379803144608
GO:0005815microtubule organizing center0.0436237898276382



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br><br>disease_data<br>

Cell Type
Ontology termp-valuen
epithelial cell8.73e-16254
animal cell2.60e-10679
eukaryotic cell2.60e-10679
migratory neural crest cell1.15e-0741
embryonic cell6.48e-07248
neural cell7.05e-0725
Disease
Ontology termp-valuen
cancer1.82e-41235
disease of cellular proliferation9.02e-40239
hematologic cancer2.27e-2351
immune system cancer2.27e-2351
organ system cancer7.40e-23137
leukemia6.35e-1939
cell type cancer8.15e-19143
carcinoma3.90e-15106
myeloid leukemia1.87e-1431


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90556.336201576962639.78880505817628e-050.00138903941775934
CHD2#1106510.34402283411698.43981772346334e-060.000230082517154996
CTBP2#1488225.08680013573130.002461438599678380.0138462881564048
CTCF#1066444.288205098460020.005152015588243280.023923852030614
E2F1#186954.907389214879320.0003512818099256460.00352391902284358
E2F4#1874512.66806031528443.06319883889696e-060.000103365888056724
E2F6#187655.017155731697390.0003144978599297790.00322523978723548
EGR1#195854.988179094810140.0003237398000590710.00330508904969397
ELF1#199754.258097958807540.0007142416939776840.00572703940708909
ETS1#211335.83725655332140.009253279045631430.0349677320348338
FOS#235347.198364247115530.0006947858453382510.00559509128701377
IRF1#365957.63716375356393.84754333311872e-050.000723503021547689
MXI1#460147.969257303007440.0004668546380070170.00429395257937603
NFYA#4800414.74046455986444.14733626928016e-050.000752116083742577
NFYB#4801413.40783460282926.03169250119439e-050.00099125717251336
NRF1#489937.326167668626540.004839689817117540.0226863718496382
PAX5#507956.669565531177837.57493746384605e-050.00116960214930014
PBX3#5090417.53161014939532.08739444052064e-050.000460704539250919
RAD21#588536.21302033727380.007751055068811640.0318868885780761
SIN3A#2594255.408884726815140.0002159522671657270.00247817150099125
SIX5#147912310.25202921327540.001832291068677690.0108482226146049
SMARCB1#6598310.95162946869440.001511872848343180.00965090693772468
SMARCC1#6599217.46534372785260.005008037385199390.0233768846193277
SMC3#912639.02695970695970.002650964449467550.0146349548650989
SP1#666755.69838137814090.000166391843712550.00204084530422725
TAF1#687253.343046285745290.002394600090870310.0135205513807863
TAL1#6886211.94744667097610.0104757781809920.0388026598611371
TFAP2A#702039.911180623826970.002021546977511280.0117443591691773
TFAP2C#702236.485537165916130.006858951517940.0290546354728102
YY1#752854.911170749853860.00034993140821360.00352527118186748
ZNF143#770238.100525931336740.003624870512090980.01832774261291
ZNF263#1012746.577473309608540.0009875103237900160.00709023722716249



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

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