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Coexpression cluster:C600

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Full id: C600_Reticulocytes_CD34_HES3GFP_Hep2_Mesenchymal_iPS_CD4



Phase1 CAGE Peaks

Hg19::chr17:77429187..77429190,+p@chr17:77429187..77429190
+
Hg19::chr18:23751305..23751327,-p1@ENST00000307796
Hg19::chr1:120904659..120904667,+p1@ENST00000401004
Hg19::chr1:120905986..120906002,+p1@HIST2H2BA
Hg19::chr1:149804218..149804222,+p11@HIST2H4A
p11@HIST2H4B
Hg19::chr1:149812975..149812992,+p@chr1:149812975..149812992
+
Hg19::chr1:149822620..149822635,+p1@HIST2H2AA3
p1@HIST2H2AA4
Hg19::chr1:149824160..149824183,+p1@HIST2H3A
p1@HIST2H3C
p1@HIST2H3D
Hg19::chr21:44985053..44985072,+p1@uc002zdj.1
Hg19::chr22:51142547..51142550,-p@chr22:51142547..51142550
-
Hg19::chr2:175366659..175366666,+p1@ENST00000313760
p1@ENST00000545980
Hg19::chr6:27776055..27776066,+p19@HIST1H3H
Hg19::chr6:27791862..27791877,+p10@HIST1H4C
p10@HIST1H4F
p9@HIST1H4A
p9@HIST1H4B
p9@HIST1H4D
p9@HIST1H4E
p9@HIST1H4H
p9@HIST1H4I
p9@HIST1H4J
p9@HIST1H4K
p9@HIST1H4L
p9@HIST2H4A
p9@HIST2H4B
p9@HIST4H4
Hg19::chr6:32146268..32146280,+p2@RNF5
Hg19::chrX:57301700..57301701,+p@chrX:57301700..57301701
+


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:0000786nucleosome1.02889990100262e-05
GO:0006334nucleosome assembly1.82795360157763e-05
GO:0031497chromatin assembly1.82795360157763e-05
GO:0006333chromatin assembly or disassembly2.69989057737589e-05
GO:0065004protein-DNA complex assembly2.69989057737589e-05
GO:0000785chromatin3.35101398552361e-05
GO:0006325establishment and/or maintenance of chromatin architecture6.68254071514103e-05
GO:0006323DNA packaging6.68254071514103e-05
GO:0044427chromosomal part6.68254071514103e-05
GO:0005694chromosome8.42194242363336e-05
GO:0051276chromosome organization and biogenesis8.42194242363336e-05
GO:0065003macromolecular complex assembly0.000215905675290121
GO:0022607cellular component assembly0.000247612823251949
GO:0006259DNA metabolic process0.000826583373718418
GO:0006996organelle organization and biogenesis0.00139878014476753
GO:0043234protein complex0.00791414839995249
GO:0043232intracellular non-membrane-bound organelle0.00791414839995249
GO:0043228non-membrane-bound organelle0.00791414839995249
GO:0043283biopolymer metabolic process0.00941767443590979
GO:0016043cellular component organization and biogenesis0.00998393556166264
GO:0003677DNA binding0.0115816774323599
GO:0032991macromolecular complex0.0148845201490435
GO:0044446intracellular organelle part0.0163198533038729
GO:0044422organelle part0.0163198533038729
GO:0043170macromolecule metabolic process0.0277801155833588
GO:0048015phosphoinositide-mediated signaling0.0348538768688054
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0394742815323511
GO:0044237cellular metabolic process0.0398442130585918
GO:0005634nucleus0.0398442130585918
GO:0044238primary metabolic process0.0398442130585918
GO:0003676nucleic acid binding0.0439843809381516



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
larynx1.94e-079
bone marrow4.43e-0780


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

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.

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