Coexpression cluster:C248

Full id: C248_iPS_Aortic_Hep2_amygdala_acute_medial_Myoblast

Phase1 CAGE Peaks

Hg19::chr10:118316172..118316174,+	p@chr10:118316172..118316174 +
Hg19::chr10:51371401..51371434,+	p1@TIMM23B
Hg19::chr10:91738412..91738433,+	p2@SNRPD2P1
Hg19::chr11:125937329..125937360,+	p1@NAP1L1P1
Hg19::chr11:32113490..32113494,+	p@chr11:32113490..32113494 +
Hg19::chr11:56457700..56457749,+	p1@ENST00000530434
Hg19::chr11:74660278..74660334,+	p1@SPCS2
Hg19::chr11:93268577..93268595,+	p2@ENST00000533701
Hg19::chr11:93268598..93268609,+	p3@ENST00000533701
Hg19::chr11:96930964..96930970,+	p@chr11:96930964..96930970 +
Hg19::chr12:63396232..63396236,+	p1@ENST00000546650
Hg19::chr12:6547635..6547653,+	p1@ENST00000447193
Hg19::chr12:8786931..8786949,+	p1@ENST00000540341
Hg19::chr16:28722774..28722807,+	p1@EIF3CL p1@EIF3C
Hg19::chr16:28722809..28722820,+	p2@EIF3C
Hg19::chr16:81129886..81129900,-	p2@GCSH
Hg19::chr17:64766837..64766855,+	p@chr17:64766837..64766855 +
Hg19::chr18:60085536..60085538,+	p@chr18:60085536..60085538 +
Hg19::chr19:47778489..47778503,+	p4@PRR24
Hg19::chr1:147400526..147400541,+	p1@GPR89A p1@GPR89B
Hg19::chr1:160287068..160287094,+	p1@SUMO1P3
Hg19::chr20:6194218..6194234,+	p1@ENST00000434910
Hg19::chr2:202689240..202689246,+	p1@ENST00000411559
Hg19::chr2:203043989..203044014,+	p1@ENST00000429685
Hg19::chr2:215562319..215562343,+	p1@ENSAP3
Hg19::chr2:219064995..219065012,+	p2@HMGB1P9
Hg19::chr2:219065015..219065047,+	p1@HMGB1P9
Hg19::chr2:26045115..26045120,+	p1@ENST00000407942
Hg19::chr3:22423205..22423225,+	p1@HMGB1P5
Hg19::chr3:96068204..96068231,+	p1@HNRNPKP4
Hg19::chr4:11370223..11370243,+	p1@MIR572
Hg19::chr4:190394055..190394060,+	p1@HSP90AA4P
Hg19::chr4:68311705..68311712,+	p1@ENST00000508720
Hg19::chr5:172952686..172952687,+	p@chr5:172952686..172952687 +
Hg19::chr5:177302520..177302548,+	p1@ENST00000506672
Hg19::chr5:31923423..31923442,+	p3@ENST00000506046
Hg19::chr5:76878173..76878177,+	p1@ENST00000493874
Hg19::chr6:147727578..147727589,+	p1@YAP1P1
Hg19::chr6:29404662..29404683,+	p@chr6:29404662..29404683 +
Hg19::chr6:34187145..34187149,+	p1@CYCSP55
Hg19::chr7:10490855..10490865,+	p1@ENST00000419827
Hg19::chr7:135335552..135335555,+	p@chr7:135335552..135335555 +
Hg19::chr7:3740599..3740621,+	p@chr7:3740599..3740621 +
Hg19::chr7:53574034..53574038,+	p@chr7:53574034..53574038 +
Hg19::chr7:55799735..55799767,+	p1@SUMO2P3
Hg19::chr7:5938386..5938430,+	p1@CCZ1B p1@CCZ1
Hg19::chr7:63895150..63895155,+	p@chr7:63895150..63895155 +
Hg19::chr8:102381049..102381068,+	p2@NACAP1
Hg19::chr8:146220249..146220272,+	p1@TMED10P1
Hg19::chr8:71016502..71016506,-	p1@ENST00000406023 p1@ENST00000521867
Hg19::chrX:33059434..33059464,+	p2@TBCAP1
Hg19::chrX:33059467..33059499,+	p1@TBCAP1
Hg19::chrX:68003226..68003229,+	p1@ENST00000396021

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0005852	eukaryotic translation initiation factor 3 complex	0.00023297493378405
GO:0006413	translational initiation	0.00704921342770137
GO:0003743	translation initiation factor activity	0.00704921342770137
GO:0022618	protein-RNA complex assembly	0.00709118496049346
GO:0008135	translation factor activity, nucleic acid binding	0.0110468791359476
GO:0043234	protein complex	0.0110468791359476
GO:0005787	signal peptidase complex	0.0110468791359476
GO:0022613	ribonucleoprotein complex biogenesis and assembly	0.0110468791359476
GO:0032991	macromolecular complex	0.0263807899356535
GO:0009003	signal peptidase activity	0.0263807899356535
GO:0005744	mitochondrial inner membrane presequence translocase complex	0.0270512476685397
GO:0006465	signal peptide processing	0.0270512476685397
GO:0044444	cytoplasmic part	0.0333867519422573
GO:0015450	P-P-bond-hydrolysis-driven protein transmembrane transporter activity	0.0333867519422573
GO:0022884	macromolecule transmembrane transporter activity	0.0333867519422573
GO:0008320	protein transmembrane transporter activity	0.0333867519422573
GO:0006518	peptide metabolic process	0.0333867519422573
GO:0065003	macromolecular complex assembly	0.0446612539727981
GO:0022607	cellular component assembly	0.0487153428619245

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
hematopoietic oligopotent progenitor cell	2.57e-20	165
hematopoietic multipotent progenitor cell	2.57e-20	165
hematopoietic stem cell	1.51e-19	172
angioblastic mesenchymal cell	1.51e-19	172
myeloid cell	5.46e-18	112
common myeloid progenitor	5.46e-18	112
hematopoietic cell	1.48e-17	182
hematopoietic lineage restricted progenitor cell	1.77e-15	124
classical monocyte	1.77e-14	45
leukocyte	2.31e-14	140
CD14-positive, CD16-negative classical monocyte	4.09e-14	42
granulocyte monocyte progenitor cell	2.40e-13	71
myeloid lineage restricted progenitor cell	2.53e-13	70
macrophage dendritic cell progenitor	5.16e-12	65
myeloid leukocyte	2.13e-11	76
nongranular leukocyte	2.30e-11	119
monopoietic cell	3.04e-11	63
monocyte	3.04e-11	63
monoblast	3.04e-11	63
promonocyte	3.04e-11	63
native cell	1.18e-08	722
motile cell	6.86e-08	390
mesenchymal cell	2.13e-07	358

Uber Anatomy

Ontology term	p-value	n
bone marrow	2.02e-12	80
bone element	1.03e-11	86
skeletal element	1.86e-10	101
skeletal system	1.86e-10	101
larynx	2.27e-07	9

Disease

Ontology term	p-value	n
cancer	1.12e-09	235
disease of cellular proliferation	2.01e-09	239

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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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

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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

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