Coexpression cluster:C1010

Full id: C1010_CD19_Neutrophils_Eosinophils_CD14_Mast_CD8_CD4

Phase1 CAGE Peaks

Hg19::chr12:122238579..122238612,+	p@chr12:122238579..122238612 +
Hg19::chr15:45879471..45879525,-	p@chr15:45879471..45879525 -
Hg19::chr17:26926142..26926159,+	p2@SPAG5-AS1
Hg19::chr18:3261789..3261859,-	p@chr18:3261789..3261859 -
Hg19::chr2:65455489..65455504,-	p4@LOC729324
Hg19::chr4:6911398..6911444,-	p1@BC032036
Hg19::chr6:30585009..30585028,-	p1@PPP1R10
Hg19::chr7:127291879..127291901,-	p1@ENST00000490314

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:0004864	protein phosphatase inhibitor activity	0.0216354645001766
GO:0019212	phosphatase inhibitor activity	0.0216354645001766
GO:0019888	protein phosphatase regulator activity	0.0216354645001766
GO:0019208	phosphatase regulator activity	0.0216354645001766
GO:0006606	protein import into nucleus	0.0216354645001766
GO:0051170	nuclear import	0.0216354645001766
GO:0017038	protein import	0.0229600847756976
GO:0006913	nucleocytoplasmic transport	0.0229600847756976
GO:0051169	nuclear transport	0.0229600847756976
GO:0006605	protein targeting	0.0288767220063582
GO:0004857	enzyme inhibitor activity	0.0482884300439934

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
leukocyte	1.02e-47	136
hematopoietic cell	4.14e-43	177
hematopoietic stem cell	5.69e-42	168
angioblastic mesenchymal cell	5.69e-42	168
hematopoietic lineage restricted progenitor cell	1.73e-39	120
hematopoietic oligopotent progenitor cell	2.19e-38	161
hematopoietic multipotent progenitor cell	2.19e-38	161
nongranular leukocyte	1.11e-36	115
myeloid leukocyte	1.10e-26	72
classical monocyte	3.55e-26	42
CD14-positive, CD16-negative classical monocyte	3.55e-26	42
defensive cell	4.58e-23	48
phagocyte	4.58e-23	48
myeloid lineage restricted progenitor cell	8.07e-23	66
myeloid cell	2.30e-22	108
common myeloid progenitor	2.30e-22	108
granulocyte monocyte progenitor cell	3.41e-22	67
macrophage dendritic cell progenitor	3.22e-21	61
monopoietic cell	3.30e-20	59
monocyte	3.30e-20	59
monoblast	3.30e-20	59
promonocyte	3.30e-20	59
nucleate cell	1.89e-15	55
lymphoid lineage restricted progenitor cell	5.24e-15	52
lymphocyte	9.44e-15	53
common lymphoid progenitor	9.44e-15	53
stuff accumulating cell	3.73e-11	87
mesenchymal cell	1.20e-10	354
connective tissue cell	2.35e-10	361
motile cell	2.58e-10	386
mature alpha-beta T cell	1.72e-09	18
alpha-beta T cell	1.72e-09	18
immature T cell	1.72e-09	18
mature T cell	1.72e-09	18
immature alpha-beta T cell	1.72e-09	18
lymphocyte of B lineage	1.29e-07	24
pro-B cell	1.29e-07	24
T cell	2.40e-07	25
pro-T cell	2.40e-07	25
B cell	5.49e-07	14
CD8-positive, alpha-beta T cell	5.58e-07	11

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	6.53e-27	98
blood island	6.53e-27	98
hemolymphoid system	1.18e-24	108
bone marrow	8.56e-21	76
immune system	2.26e-19	93
bone element	4.34e-18	82
skeletal element	1.17e-14	90
skeletal system	5.65e-12	100
lateral plate mesoderm	8.11e-10	203
connective tissue	6.29e-09	371

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
CCNT2#905	6	4.75215118272197	0.000323589541710397	0.00331067477926059
E2F1#1869	6	3.68054191115949	0.00136649155081914	0.00899162116154233
E2F6#1876	6	3.76286679877304	0.00120768002799781	0.00818540427309128
EGR1#1958	5	3.11761193425634	0.0105139099038836	0.0389190556621428
ELF1#1997	7	3.7258357139566	0.000250341272551272	0.00269790446434654
ELK4#2005	4	8.11784082923401	0.0008232748775399	0.00626782365763155
GABPB1#2553	7	6.1842233566594	7.95182205325426e-06	0.000221107652667684
GTF2B#2959	4	15.9719149671621	6.06953293153323e-05	0.000996065288869264
GTF2F1#2962	4	6.36983043837883	0.00205190837519552	0.0119101461010974
HEY1#23462	7	3.5350971627175	0.000356612305668408	0.00356711355154706
HMGN3#9324	5	5.11159232709412	0.00110951597588993	0.00770713262427456
IRF1#3659	5	4.77322734597744	0.00152554848029467	0.00971386158599532
MAFF#23764	2	14.0788391224863	0.00822012569598198	0.0324440386819343
MXI1#4601	4	4.98078581437965	0.00509441532042917	0.0236953612563598
MYC#4609	6	3.91671140370705	0.000964927056924644	0.00693810787594856
NFKB1#4790	5	3.43003964012115	0.00688090770032823	0.0291393690420315
NFYA#4800	4	9.21279034991526	0.000508523135168021	0.00445550735854135
NFYB#4801	4	8.37989662676823	0.000729691402927855	0.00581564716349071
NRF1#4899	4	6.10513972385545	0.00240374027777255	0.0135545721543268
POLR2A#5430	8	2.14745317655807	0.00221072578897191	0.0127132861997928
POU2F2#5452	4	4.55306202887126	0.00706247384683113	0.0294579538355843
RDBP#7936	2	38.4096009975062	0.00115478782065285	0.00789660742494356
SIN3A#25942	6	4.05666354511135	0.00079220890752307	0.00612779633334335
SIX5#147912	3	6.40751825829712	0.00897988242072899	0.0340479194096393
SMARCB1#6598	3	6.84476841793403	0.00747369013463395	0.030821114470722
SPI1#6688	6	6.15324263139204	7.3612205654473e-05	0.00114831742290478
TAF1#6872	8	3.34304628574529	6.40776711117462e-05	0.00104288731389117
TBP#6908	7	3.24342435120934	0.000635422362049205	0.0052114713420808
TCF7L2#6934	4	5.38508828156867	0.00382581463501135	0.0188776459730677
YY1#7528	8	4.91117074985386	2.95299276601526e-06	0.000101050986726693
ZBTB33#10009	3	11.8742718862429	0.00156455164595325	0.00992469687510395
ZNF263#10127	4	4.11092081850534	0.0101999278231626	0.0379897386656426

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.