Coexpression cluster:C242

Full id: C242_acute_Chondrocyte_myelodysplastic_granulocyte_biphenotypic_Fibroblast_stomach

Phase1 CAGE Peaks

Hg19::chr10:11894144..11894162,+	p@chr10:11894144..11894162 +
Hg19::chr10:134257886..134257894,+	p5@C10orf91
Hg19::chr10:91731546..91731549,+	p@chr10:91731546..91731549 +
Hg19::chr11:86133182..86133185,+	p@chr11:86133182..86133185 +
Hg19::chr12:117102463..117102470,+	p@chr12:117102463..117102470 +
Hg19::chr13:28620069..28620072,-	p@chr13:28620069..28620072 -
Hg19::chr13:28813645..28813656,+	p25@PAN3
Hg19::chr13:51484041..51484052,+	p8@RNASEH2B
Hg19::chr15:99819658..99819672,+	p@chr15:99819658..99819672 +
Hg19::chr16:61278581..61278587,-	p@chr16:61278581..61278587 -
Hg19::chr16:85887504..85887515,+	p@chr16:85887504..85887515 +
Hg19::chr16:85887549..85887557,+	p@chr16:85887549..85887557 +
Hg19::chr17:37865499..37865505,+	p@chr17:37865499..37865505 +
Hg19::chr17:37865552..37865557,+	p@chr17:37865552..37865557 +
Hg19::chr17:67044013..67044015,+	p@chr17:67044013..67044015 +
Hg19::chr17:80626054..80626077,-	p@chr17:80626054..80626077 -
Hg19::chr18:74846147..74846167,-	p@chr18:74846147..74846167 -
Hg19::chr19:843314..843331,+	p4@PRTN3
Hg19::chr1:108093162..108093168,-	p@chr1:108093162..108093168 -
Hg19::chr1:72566627..72566642,-	p10@NEGR1
Hg19::chr1:91123303..91123309,+	p1@ENST00000362796
Hg19::chr20:9491247..9491276,+	p@chr20:9491247..9491276 +
Hg19::chr20:9491287..9491294,+	p@chr20:9491287..9491294 +
Hg19::chr2:22534257..22534264,+	p@chr2:22534257..22534264 +
Hg19::chr2:22534265..22534281,+	p@chr2:22534265..22534281 +
Hg19::chr2:22534311..22534316,+	p@chr2:22534311..22534316 +
Hg19::chr2:22534322..22534329,+	p@chr2:22534322..22534329 +
Hg19::chr3:128578615..128578626,-	p@chr3:128578615..128578626 -
Hg19::chr3:18020939..18020953,+	p@chr3:18020939..18020953 +
Hg19::chr3:18020966..18020978,+	p@chr3:18020966..18020978 +
Hg19::chr3:18020982..18021001,+	p@chr3:18020982..18021001 +
Hg19::chr3:18021007..18021028,+	p@chr3:18021007..18021028 +
Hg19::chr3:18110143..18110146,+	p@chr3:18110143..18110146 +
Hg19::chr3:18178615..18178618,+	p@chr3:18178615..18178618 +
Hg19::chr3:18344317..18344322,+	p@chr3:18344317..18344322 +
Hg19::chr4:47432804..47432808,-	p@chr4:47432804..47432808 -
Hg19::chr4:47443248..47443256,-	p@chr4:47443248..47443256 -
Hg19::chr4:47445162..47445167,-	p@chr4:47445162..47445167 -
Hg19::chr4:47445183..47445188,-	p@chr4:47445183..47445188 -
Hg19::chr4:47445237..47445246,-	p@chr4:47445237..47445246 -
Hg19::chr5:120617659..120617660,+	p@chr5:120617659..120617660 +
Hg19::chr5:164566956..164566970,+	p@chr5:164566956..164566970 +
Hg19::chr6:14657070..14657092,-	p@chr6:14657070..14657092 -
Hg19::chr6:4890245..4890276,+	p18@CDYL
Hg19::chr6:5034746..5034769,-	p@chr6:5034746..5034769 -
Hg19::chr7:1548199..1548208,-	p@chr7:1548199..1548208 -
Hg19::chr7:1548370..1548414,-	p@chr7:1548370..1548414 -
Hg19::chr7:43150627..43150647,+	p@chr7:43150627..43150647 +
Hg19::chr7:73634762..73634776,+	p5@LAT2
Hg19::chr8:121737322..121737328,+	p@chr8:121737322..121737328 +
Hg19::chr8:143591583..143591596,+	p@chr8:143591583..143591596 +
Hg19::chr8:144488686..144488699,+	p@chr8:144488686..144488699 +
Hg19::chr8:144488798..144488834,+	p@chr8:144488798..144488834 +
Hg19::chr9:139927093..139927113,+	p7@C9orf139
Hg19::chr9:214096..214121,+	p@chr9:214096..214121 +
Hg19::chr9:96717629..96717644,-	p1@BARX1

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:0043303	mast cell degranulation	0.0426517274003166
GO:0002448	mast cell mediated immunity	0.0426517274003166
GO:0045576	mast cell activation	0.0426517274003166
GO:0043299	leukocyte degranulation	0.0426517274003166
GO:0002444	myeloid leukocyte mediated immunity	0.0426517274003166
GO:0050853	B cell receptor signaling pathway	0.0426517274003166
GO:0043285	biopolymer catabolic process	0.0426517274003166
GO:0042169	SH2 domain binding	0.0426517274003166
GO:0030178	negative regulation of Wnt receptor signaling pathway	0.0426517274003166
GO:0030574	collagen catabolic process	0.0426517274003166
GO:0044259	multicellular organismal macromolecule metabolic process	0.0426517274003166
GO:0044268	multicellular organismal protein metabolic process	0.0426517274003166
GO:0044256	protein digestion	0.0426517274003166
GO:0044254	multicellular organismal protein catabolic process	0.0426517274003166
GO:0044266	multicellular organismal macromolecule catabolic process	0.0426517274003166
GO:0000184	mRNA catabolic process, nonsense-mediated decay	0.0426517274003166
GO:0044243	multicellular organismal catabolic process	0.0426517274003166
GO:0032963	collagen metabolic process	0.0426517274003166
GO:0044236	multicellular organismal metabolic process	0.0426517274003166
GO:0005694	chromosome	0.0426517274003166
GO:0004468	lysine N-acetyltransferase activity	0.0426517274003166
GO:0004402	histone acetyltransferase activity	0.0426517274003166
GO:0030111	regulation of Wnt receptor signaling pathway	0.0426517274003166
GO:0002274	myeloid leukocyte activation	0.0426517274003166
GO:0050851	antigen receptor-mediated signaling pathway	0.0426517274003166
GO:0006402	mRNA catabolic process	0.0426517274003166
GO:0002429	immune response-activating cell surface receptor signaling pathway	0.0426517274003166
GO:0002768	immune response-regulating cell surface receptor signaling pathway	0.0426517274003166
GO:0002757	immune response-activating signal transduction	0.0426517274003166
GO:0009057	macromolecule catabolic process	0.0426517274003166
GO:0002764	immune response-regulating signal transduction	0.0426517274003166
GO:0030855	epithelial cell differentiation	0.0449074914160441
GO:0019722	calcium-mediated signaling	0.0449074914160441

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
myeloid cell	1.34e-20	112
common myeloid progenitor	1.34e-20	112
hematopoietic stem cell	7.56e-20	172
angioblastic mesenchymal cell	7.56e-20	172
hematopoietic oligopotent progenitor cell	4.19e-18	165
hematopoietic multipotent progenitor cell	4.19e-18	165
hematopoietic cell	5.57e-18	182
macrophage dendritic cell progenitor	5.75e-15	65
monopoietic cell	1.24e-14	63
monocyte	1.24e-14	63
monoblast	1.24e-14	63
promonocyte	1.24e-14	63
granulocyte monocyte progenitor cell	1.58e-14	71
myeloid lineage restricted progenitor cell	1.18e-13	70
myeloid leukocyte	1.60e-12	76
leukocyte	4.25e-12	140
nongranular leukocyte	1.85e-11	119
CD14-positive, CD16-negative classical monocyte	2.10e-11	42
hematopoietic lineage restricted progenitor cell	2.35e-11	124
classical monocyte	2.82e-11	45

Uber Anatomy

Ontology term	p-value	n
skeletal element	1.05e-16	101
skeletal system	1.05e-16	101
bone element	4.74e-13	86
bone marrow	7.51e-13	80
hematopoietic system	1.45e-11	102
blood island	1.45e-11	102
immune system	6.25e-09	115
hemolymphoid system	1.51e-08	112

Disease

Ontology term	p-value	n
hematologic cancer	6.25e-12	51
immune system cancer	6.25e-12	51
leukemia	1.12e-11	39
myeloid leukemia	4.89e-10	31
organ system cancer	6.94e-09	137

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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