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Coexpression cluster:C1841

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Full id: C1841_melanoma_Mast_schwannoma_CD14_extraskeletal_Macrophage_giant



Phase1 CAGE Peaks

  Short description
Hg19::chr1:158985457..158985468,+ p12@IFI16
Hg19::chr1:158985469..158985489,+ p7@IFI16
Hg19::chr1:158985493..158985535,+ p4@IFI16
Hg19::chr1:158985536..158985545,+ p18@IFI16
Hg19::chr1:158985553..158985574,+ p14@IFI16


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
myeloid lineage restricted progenitor cell1.52e-2266
granulocyte monocyte progenitor cell7.08e-2267
myeloid leukocyte4.05e-2172
monopoietic cell5.60e-2059
monocyte5.60e-2059
monoblast5.60e-2059
promonocyte5.60e-2059
myeloid cell5.80e-19108
common myeloid progenitor5.80e-19108
macrophage dendritic cell progenitor1.10e-1861
defensive cell2.14e-1648
phagocyte2.14e-1648
classical monocyte6.29e-1442
CD14-positive, CD16-negative classical monocyte6.29e-1442
stuff accumulating cell3.59e-1187
hematopoietic oligopotent progenitor cell1.15e-10161
hematopoietic multipotent progenitor cell1.15e-10161
hematopoietic lineage restricted progenitor cell1.44e-09120
hematopoietic stem cell3.36e-09168
angioblastic mesenchymal cell3.36e-09168
hematopoietic cell6.87e-09177
motile cell5.19e-08386
nongranular leukocyte8.96e-08115
leukocyte1.43e-07136
mesenchymal cell2.67e-07354
Uber Anatomy
Ontology termp-valuen
immune system2.12e-2193
bone marrow2.91e-2176
bone element3.29e-1982
hemolymphoid system3.80e-18108
hematopoietic system6.24e-1898
blood island6.24e-1898
skeletal element5.02e-1790
skeletal system9.78e-14100
lateral plate mesoderm1.93e-08203


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.00991994
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.10.0418333
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.10.195817
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.288856
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.11.29682
MA0060.10.321781
MA0061.10.291022
MA0063.10
MA0066.14.22427
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.00220137
MA0074.11.73427
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.132006
MA0089.10
MA0090.13.44434
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.10.442769
MA0105.10.175503
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.10.382106
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.143698
MA0146.10.143081
MA0147.11.00307
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.0118463
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.21.96224
MA0065.20.146576
MA0150.14.60032
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.172764
MA0155.10.130813
MA0156.10.480289
MA0157.12.04894
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.0592265
MA0163.10.0439995
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.22.8068
MA0079.20.000396307
MA0102.21.66336
MA0258.13.40476
MA0259.10.395396
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


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

TF#promotersEnrichmentp-valueq-value
BATF#10538524.35780179230361.16482472299935e-076.73605366806918e-06
CEBPB#105157.971147625824823.10621793420244e-050.000628702121763892
E2F6#187655.017155731697390.0003144978599297790.00322936210728603
ELF1#199754.258097958807540.0007142416939776840.00573452400656022
FOS#235358.99795530889441.69470025615156e-050.000389337439622114
GABPB1#255357.067683836182175.6685482528729e-050.00094874601118877
GTF2F1#2962512.73966087675772.97806917252935e-060.000101113968241155
IRF4#3662521.91451268674411.97628413609567e-071.07110087643848e-05
JUN#3725512.51282919233633.25800591331781e-060.000109163580231312
JUNB#3726530.61063265982113.71486060097063e-082.46490677449029e-06
JUND#372756.994663941871035.97069468343598e-050.000984796876252953
MAX#414956.452555509007128.93743970843928e-050.00130712402423987
MXI1#460159.96157162875931.01894348670516e-050.000266643544996242
MYC#460955.22228187160940.0002573944848850610.00276592474605524
NFKB1#479055.488063424193840.0002008162847462320.00239145404362733
PAX5#507956.669565531177837.57493746384605e-050.00117046736763814
POU2F2#545259.106124057742521.59639992500654e-050.000369845633912508
SETDB1#9869540.32002617801059.36422298056125e-097.149050320664e-07
SIN3A#2594255.408884726815140.0002159522671657270.00248226269321168
SPI1#668858.204323508522732.68916109982495e-050.00057469469225418
STAT3#6774510.51946499715427.759040745861e-060.00022050243713115
TAF1#687253.343046285745290.002394600090870310.013544716144411
TBP#690853.706770687096390.001428755106721120.00919281386094426
TCF12#6938510.63446490218647.34844389925727e-060.000211189909849898
USF1#739156.361499277207969.59569864925045e-050.00136889109579165
USF2#7392512.99219738506962.69963551658264e-069.42967336844062e-05



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.