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Coexpression cluster:C2656

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Full id: C2656_Renal_lung_Lymphatic_kidney_medulla_Endothelial_uterus



Phase1 CAGE Peaks

Hg19::chr2:108994403..108994461,+p1@SULT1C4
Hg19::chr2:108994466..108994485,+p3@SULT1C4
Hg19::chr2:108994565..108994623,+p2@SULT1C4
Hg19::chr2:108994633..108994650,+p4@SULT1C4


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>


Uber Anatomy
Ontology termp-valuen
adult organism7.87e-47115
central nervous system5.32e-3682
regional part of nervous system3.15e-3594
nervous system3.15e-3594
regional part of brain9.31e-3559
neural tube3.39e-3457
neural rod3.39e-3457
future spinal cord3.39e-3457
neural keel3.39e-3457
brain1.43e-2969
future brain1.43e-2969
neural plate2.36e-2986
presumptive neural plate2.36e-2986
neurectoderm1.09e-2690
anatomical cluster2.98e-26286
anterior neural tube1.38e-2442
anatomical conduit1.74e-24241
regional part of forebrain3.18e-2441
forebrain3.18e-2441
future forebrain3.18e-2441
tube1.66e-23194
pre-chordal neural plate5.67e-2161
gray matter3.98e-2034
brain grey matter3.98e-2034
telencephalon9.06e-2034
cell layer1.56e-19312
anterior region of body1.83e-19129
craniocervical region1.83e-19129
regional part of telencephalon2.39e-1933
head1.24e-18123
cerebral hemisphere1.41e-1832
epithelium1.60e-18309
ectoderm-derived structure1.08e-17169
ectoderm1.73e-16173
presumptive ectoderm1.73e-16173
multi-cellular organism1.06e-15659
embryo3.68e-15612
multi-tissue structure8.85e-15347
cerebral cortex2.54e-1425
pallium2.54e-1425
anatomical system4.23e-14625
anatomical group6.07e-14626
regional part of cerebral cortex1.80e-1322
embryonic structure6.15e-13605
developing anatomical structure6.15e-13605
organ part1.24e-12219
germ layer1.74e-12604
embryonic tissue1.74e-12604
presumptive structure1.74e-12604
epiblast (generic)1.74e-12604
neocortex3.93e-1220
cavitated compound organ2.61e-1132
posterior neural tube1.21e-1015
chordal neural plate1.21e-1015
mesonephros5.95e-1018
pronephros5.95e-1018
nephrogenic cord5.95e-1018
pronephric mesoderm5.95e-1018
rostral part of nephrogenic cord5.95e-1018
presumptive pronephric mesoderm5.95e-1018
kidney1.16e-0927
kidney mesenchyme1.16e-0927
kidney rudiment1.16e-0927
kidney field1.16e-0927
excretory tube1.21e-0917
mesonephric epithelium1.21e-0917
mesonephric tubule1.21e-0917
nephric duct1.21e-0917
kidney epithelium1.21e-0917
renal duct1.21e-0917
mesonephric duct1.21e-0917
pronephric duct1.21e-0917
organism subdivision1.30e-09365
intraembryonic coelom1.46e-0921
urogenital ridge1.77e-0920
nephron epithelium3.83e-0916
nephron3.83e-0916
uriniferous tubule3.83e-0916
metanephric mesenchyme3.83e-0916
nephrogenic mesenchyme3.83e-0916
organ7.87e-09511
segmental subdivision of nervous system8.51e-0913
compound organ1.21e-0869
segmental subdivision of hindbrain1.86e-0812
hindbrain1.86e-0812
presumptive hindbrain1.86e-0812
renal tubule3.03e-0812


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
HEY1#2346244.040111043105710.00375304636917980.0186339153672817
RFX5#5993412.04791082719514.74457429336527e-050.000827381189889423
TAF1#687243.343046285745290.008005664898701650.0322707798971594
TAL1#6886214.93430833872010.006428077577888070.0279516193753457
TRIM28#10155418.59052504526258.36730015875654e-060.0002303908413605



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.