Coexpression cluster:C4803

Full id: C4803_CD14_Mast_serous_Eosinophils_cord_ductus_epididymis

Phase1 CAGE Peaks

Hg19::chr9:132251080..132251099,+	p3@LOC100506190
Hg19::chr9:132251115..132251147,+	p2@LOC100506190
Hg19::chr9:132251160..132251219,+	p1@ENST00000419300

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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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>

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Cell Type

Ontology term	p-value	n
myeloid leukocyte	1.23e-28	76
granulocyte monocyte progenitor cell	1.78e-23	71
classical monocyte	3.48e-23	45
myeloid lineage restricted progenitor cell	5.88e-22	70
CD14-positive, CD16-negative classical monocyte	1.15e-21	42
monopoietic cell	2.32e-21	63
monocyte	2.32e-21	63
monoblast	2.32e-21	63
promonocyte	2.32e-21	63
macrophage dendritic cell progenitor	2.85e-21	65
myeloid cell	3.95e-11	112
common myeloid progenitor	3.95e-11	112
leukocyte	1.46e-07	140

Uber Anatomy

Ontology term	p-value	n
bone marrow	1.02e-18	80
hematopoietic system	1.63e-18	102
blood island	1.63e-18	102
hemolymphoid system	1.74e-17	112
bone element	2.33e-17	86
lateral plate mesoderm	5.95e-17	216
immune system	2.98e-16	115
skeletal element	2.67e-14	101
skeletal system	2.67e-14	101
mesoderm	1.59e-12	448
mesoderm-derived structure	1.59e-12	448
presumptive mesoderm	1.59e-12	448
musculoskeletal system	4.58e-09	167

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)
{{{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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
BRCA1#672	3	20.1842306432238	0.000121570486027164	0.00164571613612326
CCNT2#905	3	6.33620157696263	0.00393075003576489	0.0191395217952002
CEBPB#1051	3	7.97114762582482	0.00197418705528856	0.0115884735761736
CTCF#10664	3	5.36025637307503	0.006492509252767	0.0281684601964828
E2F1#1869	3	4.90738921487932	0.00846098534723939	0.0328155395380398
E2F4#1874	3	12.6680603152844	0.000491798700629898	0.0043941281970302
E2F6#1876	3	5.01715573169739	0.0079176980688633	0.0324752177125246
EBF1#1879	3	8.906466846569	0.0014152328356098	0.00919645981323123
EGR1#1958	3	4.98817909481014	0.00805648813738344	0.0322849959550376
ELF1#1997	3	4.25809795880754	0.0129517987505461	0.0465347774084314
ELK4#2005	3	16.235681658468	0.000233604395574599	0.00256517815891237
EP300#2033	3	6.7739417262232	0.00321688050010379	0.0168624665002178
ESR1#2099	3	30.7686032961545	3.43136389821584e-05	0.000680015586652303
FOS#2353	3	8.9979553088944	0.00137249927241713	0.00902546603148045
FOSL2#2355	3	16.9302006045617	0.000206016205317162	0.00244168480108024
FOXA1#3169	3	11.0814197493855	0.00073475527569867	0.00584841904113203
GATA3#2625	3	27.236516357206	4.94721007899563e-05	0.00085571658403482
GTF2F1#2962	3	12.7396608767577	0.000483552504743859	0.00436224756352629
HMGN3#9324	3	8.17854772335059	0.00182776694216421	0.0109348772224717
JUN#3725	3	12.5128291923363	0.000510331399272625	0.00446610533003466
JUNB#3726	3	30.6106326598211	3.4847716247536e-05	0.000683081951422
JUND#3727	3	6.99466394187103	0.00292184504273499	0.0157800483203123
MXI1#4601	3	9.9615716287593	0.00101147054125902	0.00723987196618128
NR2C2#7182	2	21.7430739368272	0.00276220797549601	0.0151410401906696
NR3C1#2908	3	14.973023331173	0.000297833119467548	0.00310557040376111
RAD21#5885	3	10.3550338954563	0.000900491207356542	0.00669321765035299
SMARCB1#6598	3	18.2527157811574	0.00016439776067989	0.00204156215548716
SMC3#9126	3	15.0449328449328	0.000293582542037187	0.00311062870120947
STAT3#6774	3	10.5194649971542	0.000858918453041531	0.00646146973400594
TCF7L2#6934	3	10.7701765631373	0.000800318129839838	0.00617999446671666
TRIM28#10155	3	18.5905250452625	0.000155596929725528	0.00198223807557994
USF1#7391	3	6.36149927720796	0.0038840405729056	0.0191360181806627
YY1#7528	3	4.91117074985386	0.00844145534180826	0.0331534730160617

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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This analysis result is provided for C0 - C305 clusters.