Coexpression cluster:C270

Full id: C270_CD4_Fibroblast_acute_iPS_Aortic_CD34_Smooth

Phase1 CAGE Peaks

Hg19::chr10:70259244..70259249,+	p1@ENST00000414397
Hg19::chr11:41559949..41559958,+	p1@ENST00000489849
Hg19::chr11:8704298..8704345,+	p1@RPL27A
Hg19::chr11:9780879..9780882,+	p@chr11:9780879..9780882 +
Hg19::chr14:60630295..60630299,+	p@chr14:60630295..60630299 +
Hg19::chr15:60696620..60696621,+	p1@ENST00000477729
Hg19::chr16:3546164..3546173,+	p1@ENST00000459875
Hg19::chr17:26794793..26794802,+	p1@RPS7P1
Hg19::chr17:60474725..60474735,+	p1@ENST00000466210
Hg19::chr19:20235787..20235812,+	p1@ENST00000497576
Hg19::chr1:166716552..166716571,+	p1@ENST00000447259
Hg19::chr1:77594751..77594764,+	p1@ENST00000535687
Hg19::chr20:36073953..36073967,-	p1@RPL7AP14
Hg19::chr20:42281142..42281149,+	p1@RPL27AP
Hg19::chr20:45700487..45700491,+	p1@ENST00000429337
Hg19::chr22:17673737..17673768,+	p1@ENST00000428401
Hg19::chr22:32435449..32435460,+	p1@ENST00000423610
Hg19::chr2:162944750..162944764,+	p1@EIF3EP2
Hg19::chr2:44497668..44497671,+	p1@ENST00000429825
Hg19::chr3:186617869..186617872,+	p1@ENST00000412545
Hg19::chr3:39448201..39448222,+	p1@RPSA
Hg19::chr3:54660217..54660228,+	p1@RPS15P5
Hg19::chr4:152020789..152020800,+	p3@RPS3A
Hg19::chr4:153356096..153356098,+	p@chr4:153356096..153356098 +
Hg19::chr4:165864400..165864421,+	p1@NACA3P
Hg19::chr4:25680438..25680449,+	p1@ENST00000496507
Hg19::chr4:63376074..63376080,+	p1@HMGN1P11
Hg19::chr5:10488861..10488883,+	p1@ENST00000479312
Hg19::chr5:18049555..18049568,+	p1@ENST00000490372
Hg19::chr5:31923400..31923411,+	p1@ENST00000506046
Hg19::chr5:78825099..78825108,+	p1@ENST00000486157
Hg19::chr6:121702579..121702585,+	p1@ENST00000407291
Hg19::chr6:127756747..127756759,+	p1@ENST00000404780
Hg19::chr6:151420592..151420605,+	p1@ENST00000405720
Hg19::chr6:35436167..35436194,+	p1@RPL10A
Hg19::chr7:102395576..102395578,+	p1@ENST00000434317
Hg19::chr7:108150654..108150657,+	p1@ENST00000457119
Hg19::chr7:135344733..135344758,+	p1@ENST00000422772 p1@ENST00000431303
Hg19::chr7:138373682..138373693,+	p1@ENST00000417063
Hg19::chr7:143493344..143493345,+	p1@ENST00000421443
Hg19::chr8:102381085..102381119,+	p1@NACAP1
Hg19::chr8:49297099..49297111,+	p1@RPL29P19
Hg19::chr8:57500935..57500955,+	p1@ENST00000464216
Hg19::chr9:129387943..129387948,+	p@chr9:129387943..129387948 +
Hg19::chr9:135894802..135894817,+	p1@EEF1A1P5
Hg19::chrX:114937108..114937121,+	p1@ENST00000434365
Hg19::chrX:127913853..127913854,+	p@chrX:127913853..127913854 +
Hg19::chrX:23855458..23855463,-	p1@RPL9P7

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:0005830	cytosolic ribosome (sensu Eukaryota)	9.0654986515383e-06
GO:0003735	structural constituent of ribosome	4.17649681473539e-05
GO:0044445	cytosolic part	4.17649681473539e-05
GO:0005840	ribosome	4.17649681473539e-05
GO:0033279	ribosomal subunit	4.92998464617523e-05
GO:0030529	ribonucleoprotein complex	8.94157392872627e-05
GO:0006412	translation	9.6857364533907e-05
GO:0005843	cytosolic small ribosomal subunit (sensu Eukaryota)	0.000106742572989642
GO:0009059	macromolecule biosynthetic process	0.000210778053192807
GO:0005829	cytosol	0.000399030908876565
GO:0044249	cellular biosynthetic process	0.000403158389548532
GO:0015935	small ribosomal subunit	0.000866415102296869
GO:0009058	biosynthetic process	0.000866415102296869
GO:0043232	intracellular non-membrane-bound organelle	0.00148830839864719
GO:0043228	non-membrane-bound organelle	0.00148830839864719
GO:0005055	laminin receptor activity	0.001618885021312
GO:0032991	macromolecular complex	0.00400855438096035
GO:0044444	cytoplasmic part	0.00727027070458189
GO:0010467	gene expression	0.0133971702269967
GO:0044267	cellular protein metabolic process	0.0139360835017471
GO:0044260	cellular macromolecule metabolic process	0.0139432706096868
GO:0019538	protein metabolic process	0.015231654652785
GO:0005842	cytosolic large ribosomal subunit (sensu Eukaryota)	0.0219127406722634
GO:0003723	RNA binding	0.0284036073634093
GO:0008305	integrin complex	0.0284036073634093
GO:0005737	cytoplasm	0.0327837559577845
GO:0006413	translational initiation	0.0450399050801686
GO:0044446	intracellular organelle part	0.0450399050801686
GO:0044422	organelle part	0.0450399050801686
GO:0015934	large ribosomal subunit	0.0450547311984884
GO:0043235	receptor complex	0.0456641632581076

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>

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Cell Type

Ontology term	p-value	n
hematopoietic lineage restricted progenitor cell	1.07e-23	124
hematopoietic stem cell	1.19e-22	172
angioblastic mesenchymal cell	1.19e-22	172
hematopoietic oligopotent progenitor cell	7.53e-22	165
hematopoietic multipotent progenitor cell	7.53e-22	165
leukocyte	2.13e-21	140
hematopoietic cell	2.22e-21	182
nongranular leukocyte	5.49e-21	119
classical monocyte	2.36e-19	45
CD14-positive, CD16-negative classical monocyte	3.37e-19	42
native cell	8.15e-18	722
animal cell	2.31e-14	679
eukaryotic cell	2.31e-14	679
myeloid lineage restricted progenitor cell	2.54e-12	70
stem cell	6.54e-12	444
macrophage dendritic cell progenitor	1.11e-11	65
granulocyte monocyte progenitor cell	1.36e-11	71
somatic cell	1.40e-11	591
myeloid cell	1.97e-11	112
common myeloid progenitor	1.97e-11	112
multi fate stem cell	4.25e-11	430
somatic stem cell	5.95e-11	436
lymphocyte	7.86e-11	53
common lymphoid progenitor	7.86e-11	53
monopoietic cell	8.23e-11	63
monocyte	8.23e-11	63
monoblast	8.23e-11	63
promonocyte	8.23e-11	63
lymphoid lineage restricted progenitor cell	1.05e-10	52
connective tissue cell	9.91e-10	365
mesenchymal cell	1.98e-09	358
myeloid leukocyte	5.83e-09	76
motile cell	4.17e-08	390

Uber Anatomy

Ontology term	p-value	n
bone marrow	4.45e-11	80
bone element	1.14e-10	86
skeletal element	1.42e-09	101
skeletal system	1.42e-09	101
connective tissue	1.41e-08	375
musculoskeletal system	7.79e-08	167
hematopoietic system	1.01e-07	102
blood island	1.01e-07	102
hemolymphoid system	5.18e-07	112

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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