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Coexpression cluster:C1965

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Full id: C1965_Hepatocyte_liver_CD133_CD34_mesenchymal_placenta_kidney



Phase1 CAGE Peaks

Hg19::chr5:76248681..76248690,+p5@CRHBP
Hg19::chr5:76248797..76248808,+p3@CRHBP
Hg19::chr5:76248833..76248836,+p9@CRHBP
Hg19::chr5:76248861..76248877,+p1@CRHBP
Hg19::chr5:76248878..76248889,+p4@CRHBP


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


No GOStat results

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>uberon_data<br><br>


Cell Type
Ontology termp-valuen
astrocyte of the cerebral cortex3.52e-073
Uber Anatomy
Ontology termp-valuen
regional part of nervous system6.93e-5253
regional part of brain6.93e-5253
neural tube3.67e-5156
neural rod3.67e-5156
future spinal cord3.67e-5156
neural keel3.67e-5156
telencephalon7.74e-5034
brain grey matter1.75e-4934
gray matter1.75e-4934
regional part of forebrain4.76e-4941
forebrain4.76e-4941
anterior neural tube4.76e-4941
future forebrain4.76e-4941
cerebral hemisphere6.18e-4632
regional part of telencephalon9.07e-4632
brain1.84e-4468
future brain1.84e-4468
central nervous system1.97e-4381
neural plate2.13e-4382
presumptive neural plate2.13e-4382
adult organism5.59e-43114
pre-chordal neural plate3.36e-4161
neurectoderm8.92e-4186
cerebral cortex2.48e-4025
pallium2.48e-4025
nervous system7.44e-3889
regional part of cerebral cortex9.18e-3522
structure with developmental contribution from neural crest1.49e-31132
ecto-epithelium1.76e-31104
neocortex2.81e-3120
ectoderm-derived structure8.82e-21171
ectoderm8.82e-21171
presumptive ectoderm8.82e-21171
tube1.13e-16192
organ system subdivision2.70e-15223
gyrus1.67e-136
anatomical cluster1.22e-12373
brainstem2.42e-126
anatomical conduit5.17e-12240
organ part2.26e-11218
temporal lobe2.28e-116
limbic system2.75e-115
basal ganglion6.12e-119
nuclear complex of neuraxis6.12e-119
aggregate regional part of brain6.12e-119
collection of basal ganglia6.12e-119
cerebral subcortex6.12e-119
neural nucleus1.10e-109
nucleus of brain1.10e-109
multi-tissue structure2.97e-10342
epithelium5.81e-10306
cell layer9.97e-10309
parietal lobe1.02e-075
frontal cortex1.23e-073
occipital lobe1.58e-075
telencephalic nucleus2.53e-077
organ3.03e-07503
pons3.09e-073
medulla oblongata9.30e-073
myelencephalon9.30e-073
future myelencephalon9.30e-073


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)
MA0003.10.00991994
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.10.660087
MA0017.10.496101
MA0019.13.07324
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
MA0048.10.569896
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.288856
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.12.23433
MA0060.10.321781
MA0061.10.791444
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.00220137
MA0074.10.730989
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
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.12.02769
MA0103.10.442769
MA0105.10.175503
MA0106.10.779931
MA0107.11.74965
MA0108.23.56647
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
MA0142.13.4738
MA0143.11.87149
MA0144.10.356507
MA0145.10.143698
MA0146.10.0359558
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.0118463
MA0138.20.837782
MA0002.20.83106
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.425004
MA0065.20.146576
MA0150.12.32613
MA0151.10
MA0152.11.66846
MA0153.11.21379
MA0154.10.172764
MA0155.10.130813
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.21472
MA0163.10.0439995
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.20.699641
MA0079.20.000396307
MA0102.21.66336
MA0258.10.345771
MA0259.11.02361
MA0442.10



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


No analysis results for this cluster

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.