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{{Coexpression_clusters
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projection biogenesis!0.0432709290003532!5880$GO:0042330!taxis!0.0432709290003532!5880$GO:0006935!chemotaxis!0.0432709290003532!5880$GO:0007626!locomotory behavior!0.0432709290003532!5880$GO:0005635!nuclear envelope!0.0432709290003532!5880$GO:0032990!cell part morphogenesis!0.0432709290003532!5880$GO:0048858!cell projection morphogenesis!0.0432709290003532!5880$GO:0030030!cell projection organization and biogenesis!0.0432709290003532!5880$GO:0008284!positive regulation of cell proliferation!0.0432709290003532!5880$GO:0030036!actin cytoskeleton organization and biogenesis!0.0432709290003532!5880$GO:0030029!actin filament-based process!0.0432709290003532!5880$GO:0003924!GTPase 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|full_id=C2645_Neutrophils_Mast_CD4_Whole_chronic_Monocytederived_meningioma
|gostat_on_coexpression_clusters=GO:0030031!cell projection biogenesis!0.0432709290003532!5880$GO:0042330!taxis!0.0432709290003532!5880$GO:0006935!chemotaxis!0.0432709290003532!5880$GO:0007626!locomotory behavior!0.0432709290003532!5880$GO:0005635!nuclear envelope!0.0432709290003532!5880$GO:0032990!cell part morphogenesis!0.0432709290003532!5880$GO:0048858!cell projection morphogenesis!0.0432709290003532!5880$GO:0030030!cell projection organization and biogenesis!0.0432709290003532!5880$GO:0008284!positive regulation of cell proliferation!0.0432709290003532!5880$GO:0030036!actin cytoskeleton organization and biogenesis!0.0432709290003532!5880$GO:0030029!actin filament-based process!0.0432709290003532!5880$GO:0003924!GTPase activity!0.0432709290003532!5880$GO:0007610!behavior!0.0432709290003532!5880
|id=C2645
}}

Latest revision as of 12:10, 17 September 2013


Full id: C2645_Neutrophils_Mast_CD4_Whole_chronic_Monocytederived_meningioma



Phase1 CAGE Peaks

Hg19::chr22:37621736..37621790,-p7@RAC2
Hg19::chr22:37628003..37628037,-p9@RAC2
Hg19::chr22:37628892..37628908,-p@chr22:37628892..37628908
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Hg19::chr22:37637680..37637701,-p1@M64595


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:0030031cell projection biogenesis0.0432709290003532
GO:0042330taxis0.0432709290003532
GO:0006935chemotaxis0.0432709290003532
GO:0007626locomotory behavior0.0432709290003532
GO:0005635nuclear envelope0.0432709290003532
GO:0032990cell part morphogenesis0.0432709290003532
GO:0048858cell projection morphogenesis0.0432709290003532
GO:0030030cell projection organization and biogenesis0.0432709290003532
GO:0008284positive regulation of cell proliferation0.0432709290003532
GO:0030036actin cytoskeleton organization and biogenesis0.0432709290003532
GO:0030029actin filament-based process0.0432709290003532
GO:0003924GTPase activity0.0432709290003532
GO:0007610behavior0.0432709290003532



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 cell9.01e-50168
angioblastic mesenchymal cell9.01e-50168
hematopoietic cell9.61e-48177
hematopoietic oligopotent progenitor cell3.02e-47161
hematopoietic multipotent progenitor cell3.02e-47161
leukocyte1.10e-45136
nongranular leukocyte4.81e-43115
hematopoietic lineage restricted progenitor cell1.77e-42120
myeloid leukocyte7.16e-2672
myeloid cell4.22e-25108
common myeloid progenitor4.22e-25108
myeloid lineage restricted progenitor cell8.32e-2366
granulocyte monocyte progenitor cell1.99e-2167
defensive cell3.93e-2148
phagocyte3.93e-2148
lymphocyte1.54e-2053
common lymphoid progenitor1.54e-2053
monopoietic cell1.82e-2059
monocyte1.82e-2059
monoblast1.82e-2059
promonocyte1.82e-2059
lymphoid lineage restricted progenitor cell2.03e-2052
nucleate cell2.02e-1955
macrophage dendritic cell progenitor6.77e-1961
classical monocyte1.46e-1842
CD14-positive, CD16-negative classical monocyte1.46e-1842
somatic stem cell3.04e-16433
multi fate stem cell7.00e-16427
stem cell9.58e-16441
mesenchymal cell2.82e-15354
connective tissue cell4.36e-15361
somatic cell4.70e-13588
T cell2.49e-1225
pro-T cell2.49e-1225
native cell1.07e-11722
mature alpha-beta T cell4.45e-1018
alpha-beta T cell4.45e-1018
immature T cell4.45e-1018
mature T cell4.45e-1018
immature alpha-beta T cell4.45e-1018
motile cell6.35e-09386
lymphocyte of B lineage2.63e-0824
pro-B cell2.63e-0824
CD8-positive, alpha-beta T cell3.69e-0711
Uber Anatomy
Ontology termp-valuen
hemolymphoid system2.98e-28108
hematopoietic system1.98e-2698
blood island1.98e-2698
immune system2.17e-2393
lateral plate mesoderm4.99e-22203
bone marrow3.44e-1976
bone element1.37e-1582
skeletal element8.40e-1590
connective tissue4.34e-14371
skeletal system1.12e-11100
mesoderm1.17e-09315
mesoderm-derived structure1.17e-09315
presumptive mesoderm1.17e-09315
musculoskeletal system4.80e-09167
vessel3.37e-0868
cardiovascular system5.38e-08109
circulatory system2.04e-07112
epithelial tube open at both ends7.86e-0759
blood vessel7.86e-0759
blood vasculature7.86e-0759
vascular cord7.86e-0759
Disease
Ontology termp-valuen
hematologic cancer7.30e-0951
immune system cancer7.30e-0951
leukemia3.94e-0739


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)
MA0003.10.0938548
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.214613
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.11.02755
MA0089.10
MA0090.11.54523
MA0091.11.70187
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.656404
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.11.46638
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.221129
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.10559
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.551048
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.918944
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.00910927
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
MA0442.10



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

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

This analysis result is provided for C0 - C305 clusters.

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