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Coexpression cluster:C3811

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Full id: C3811_Neutrophils_CD19_CD14CD16_CD14_migratory_Eosinophils_Peripheral



Phase1 CAGE Peaks

Hg19::chr19:49842010..49842054,+p@chr19:49842010..49842054
+
Hg19::chr2:158300517..158300544,-p2@CYTIP
Hg19::chr7:135662021..135662051,-p2@MTPN


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


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


GO IDGO nameFDR corrected p-value
GO:0021697cerebellar cortex formation0.000863456179598885
GO:0021533cell differentiation in hindbrain0.000863456179598885
GO:0021684cerebellar granular layer formation0.000863456179598885
GO:0021683cerebellar granular layer morphogenesis0.000863456179598885
GO:0021681cerebellar granular layer development0.000863456179598885
GO:0021707cerebellar granule cell differentiation0.000863456179598885
GO:0043403skeletal muscle regeneration0.00129518426939833
GO:0021575hindbrain morphogenesis0.00129518426939833
GO:0021587cerebellum morphogenesis0.00129518426939833
GO:0021696cerebellar cortex morphogenesis0.00129518426939833
GO:0021695cerebellar cortex development0.00141292829388908
GO:0022037metencephalon development0.00159407294695179
GO:0021549cerebellum development0.00159407294695179
GO:0016202regulation of striated muscle development0.00240534221459689
GO:0051146striated muscle cell differentiation0.00259036853879666
GO:0042246tissue regeneration0.00259036853879666
GO:0031099regeneration0.00274274315872587
GO:0030902hindbrain development0.00330991535512906
GO:0006584catecholamine metabolic process0.00349699752737549
GO:0018958phenol metabolic process0.00349699752737549
GO:0030424axon0.00419393001519459
GO:0048589developmental growth0.00435652890615801
GO:0042692muscle cell differentiation0.00518073707759331
GO:0006576biogenic amine metabolic process0.00798696966128969
GO:0043005neuron projection0.00839279406570117
GO:0014706striated muscle development0.00863456179598885
GO:0006575amino acid derivative metabolic process0.00863456179598885
GO:0042060wound healing0.0121192242350843
GO:0007420brain development0.0124159043756116
GO:0048646anatomical structure formation0.0132108795478629
GO:0007517muscle development0.0143723673765492
GO:0006725aromatic compound metabolic process0.0144432670041995
GO:0006417regulation of translation0.0144432670041995
GO:0031326regulation of cellular biosynthetic process0.0147020917066837
GO:0016049cell growth0.0147020917066837
GO:0008361regulation of cell size0.0147020917066837
GO:0030182neuron differentiation0.0147020917066837
GO:0009889regulation of biosynthetic process0.0147923677083914
GO:0007417central nervous system development0.0156086309389029
GO:0048699generation of neurons0.0156717296597198
GO:0022008neurogenesis0.0165530867601152
GO:0009888tissue development0.0188110096269757
GO:0042995cell projection0.0188554733172873
GO:0051246regulation of protein metabolic process0.0243494642646886
GO:0009611response to wounding0.0243494642646886
GO:0006066alcohol metabolic process0.0250589999948807
GO:0000902cell morphogenesis0.0257957533655167
GO:0032989cellular structure morphogenesis0.0257957533655167
GO:0006519amino acid and derivative metabolic process0.0289698359032769
GO:0009605response to external stimulus0.0323034194249936
GO:0009308amine metabolic process0.0323034194249936
GO:0006807nitrogen compound metabolic process0.033774420563541
GO:0007399nervous system development0.0349944127128001
GO:0065008regulation of biological quality0.0457152077309854
GO:0009653anatomical structure morphogenesis0.0493111974567291



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>


Cell Type
Ontology termp-valuen
hematopoietic stem cell1.76e-67172
angioblastic mesenchymal cell1.76e-67172
leukocyte1.84e-64140
hematopoietic cell5.65e-64182
hematopoietic oligopotent progenitor cell1.26e-63165
hematopoietic multipotent progenitor cell1.26e-63165
nongranular leukocyte2.42e-53119
hematopoietic lineage restricted progenitor cell1.08e-52124
myeloid cell7.91e-38112
common myeloid progenitor7.91e-38112
myeloid leukocyte5.74e-3476
granulocyte monocyte progenitor cell2.92e-3071
macrophage dendritic cell progenitor1.35e-2865
myeloid lineage restricted progenitor cell3.67e-2870
monopoietic cell1.27e-2763
monocyte1.27e-2763
monoblast1.27e-2763
promonocyte1.27e-2763
CD14-positive, CD16-negative classical monocyte1.04e-2542
classical monocyte1.10e-2445
lymphocyte2.84e-2253
common lymphoid progenitor2.84e-2253
lymphoid lineage restricted progenitor cell8.11e-2252
mesenchymal cell1.68e-15358
connective tissue cell1.57e-13365
lymphocyte of B lineage5.10e-1324
pro-B cell5.10e-1324
multi fate stem cell5.02e-10430
motile cell7.39e-10390
stem cell1.79e-09444
somatic stem cell2.30e-09436
B cell3.36e-0914
T cell7.14e-0925
pro-T cell7.14e-0925
mature alpha-beta T cell1.23e-0818
alpha-beta T cell1.23e-0818
immature T cell1.23e-0818
mature T cell1.23e-0818
immature alpha-beta T cell1.23e-0818
intermediate monocyte6.98e-079
CD14-positive, CD16-positive monocyte6.98e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.74e-34102
blood island1.74e-34102
hemolymphoid system3.22e-33112
bone marrow4.51e-2580
bone element1.86e-2186
immune system1.53e-19115
skeletal element2.37e-16101
skeletal system2.37e-16101
lateral plate mesoderm5.47e-14216
connective tissue8.51e-13375
blood1.93e-0715
haemolymphatic fluid1.93e-0715
organism substance1.93e-0715
Disease
Ontology termp-valuen
hematologic cancer3.14e-0851
immune system cancer3.14e-0851


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


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


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

TF#promotersEnrichmentp-valueq-value
MYC#460935.22228187160940.007020843755740150.0294489698785391



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


This analysis result is provided for C0 - C305 clusters.