Personal tools

Coexpression cluster:C974

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C974_Dendritic_CD8_CD4_Natural_NK_B_Basophils



Phase1 CAGE Peaks

Hg19::chr10:129979299..129979317,+p1@uc001lkg.1
Hg19::chr10:129979342..129979357,+p2@uc001lkg.1
Hg19::chr10:129979383..129979404,+p3@uc001lkg.1
Hg19::chr20:62367972..62367984,+p3@LIME1
Hg19::chr20:62368028..62368039,+p4@LIME1
Hg19::chr2:102972753..102972800,+p4@IL18R1
Hg19::chrX:70838306..70838369,-p1@CXCR3
Hg19::chrX:70838380..70838395,-p2@CXCR3


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:0019955cytokine binding0.00183758911621637
GO:0004908interleukin-1 receptor activity0.0154665555303623
GO:0019966interleukin-1 binding0.0154665555303623
GO:0016494C-X-C chemokine receptor activity0.0154665555303623
GO:0019958C-X-C chemokine binding0.0154665555303623
GO:0005886plasma membrane0.01723178285095
GO:0016493C-C chemokine receptor activity0.0187002886462243
GO:0019957C-C chemokine binding0.0187002886462243
GO:0004907interleukin receptor activity0.0187002886462243
GO:0001637G-protein chemoattractant receptor activity0.0187002886462243
GO:0004950chemokine receptor activity0.0187002886462243
GO:0019956chemokine binding0.0187002886462243
GO:0019965interleukin binding0.0187002886462243
GO:0006955immune response0.0187002886462243
GO:0002376immune system process0.0236252975438142
GO:0004896hematopoietin/interferon-class (D200-domain) cytokine receptor activity0.0250187790858287
GO:0051480cytosolic calcium ion homeostasis0.0250187790858287
GO:0007204elevation of cytosolic calcium ion concentration0.0250187790858287
GO:0016021integral to membrane0.0272501061713494
GO:0031224intrinsic to membrane0.0272501061713494
GO:0019838growth factor binding0.0272501061713494
GO:0045087innate immune response0.0292619805128171
GO:0055074calcium ion homeostasis0.0292619805128171
GO:0006874cellular calcium ion homeostasis0.0292619805128171
GO:0004888transmembrane receptor activity0.0292619805128171
GO:0006875cellular metal ion homeostasis0.0292619805128171
GO:0055065metal ion homeostasis0.0292619805128171
GO:0044425membrane part0.029686163485034
GO:0042330taxis0.029686163485034
GO:0006935chemotaxis0.029686163485034
GO:0001653peptide receptor activity0.029686163485034
GO:0008528peptide receptor activity, G-protein coupled0.029686163485034
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0335256500190761
GO:0007626locomotory behavior0.0335256500190761
GO:0055066di-, tri-valent inorganic cation homeostasis0.0335256500190761
GO:0030003cellular cation homeostasis0.0350714466327775
GO:0055080cation homeostasis0.0350714466327775
GO:0042277peptide binding0.0350714466327775
GO:0055082cellular chemical homeostasis0.0379306900088159
GO:0006873cellular ion homeostasis0.0379306900088159
GO:0004872receptor activity0.0400874681138121
GO:0050801ion homeostasis0.0400874681138121
GO:0016020membrane0.0400874681138121
GO:0007610behavior0.0427037919488679
GO:0048878chemical homeostasis0.0428808753857429
GO:0019725cellular homeostasis0.048826880339797
GO:0060089molecular transducer activity0.048826880339797
GO:0004871signal transducer activity0.048826880339797
GO:0051674localization of cell0.048826880339797
GO:0006928cell motility0.048826880339797



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>

Uber Anatomy
Ontology termp-valuen
blood4.30e-1315
haemolymphatic fluid4.30e-1315
organism substance4.30e-1315
adult organism8.11e-11114
hemopoietic organ7.18e-087
immune organ7.18e-087
thymus3.00e-074
hemolymphoid system gland3.00e-074
thymic region3.00e-074
pharyngeal gland3.00e-074
thymus primordium3.00e-074


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)
MA0003.10.140538
MA0004.11.15451
MA0006.10.300178
MA0007.11.1148
MA0009.10.918715
MA0014.10.0484929
MA0017.10.337901
MA0019.10.602411
MA0024.10.813542
MA0025.11.05265
MA0027.12.5321
MA0028.10.315574
MA0029.10.832916
MA0030.10.821423
MA0031.10.756713
MA0038.10.557409
MA0040.10.838784
MA0041.10.474018
MA0042.11.12605
MA0043.10.919032
MA0046.10.90778
MA0048.11.08711
MA0050.10.443405
MA0051.10.553205
MA0052.10.842664
MA0055.11.2107
MA0056.10
MA0057.10.0912556
MA0058.11.69448
MA0059.10.948176
MA0060.10.190336
MA0061.10.165998
MA0063.10
MA0066.10.557833
MA0067.11.23721
MA0068.10.133123
MA0069.10.903908
MA0070.10.892666
MA0071.10.518907
MA0072.10.888148
MA0073.10.0041831
MA0074.10.552456
MA0076.10.377799
MA0077.10.880402
MA0078.10.652193
MA0081.10.948525
MA0083.10.926258
MA0084.11.42483
MA0087.10.885691
MA0088.10.199853
MA0089.10
MA0090.10.391903
MA0091.10.458301
MA0092.11.07975
MA0093.11.48478
MA0095.10
MA0098.10
MA0100.10.571227
MA0101.10.30624
MA0103.10.291333
MA0105.10.0818021
MA0106.10.59853
MA0107.10.236528
MA0108.20.753643
MA0109.10
MA0111.10.405141
MA0113.10.614917
MA0114.10.231781
MA0115.11.1606
MA0116.10.239768
MA0117.10.956472
MA0119.10.345493
MA0122.10.982472
MA0124.11.11898
MA0125.11.0347
MA0130.10
MA0131.10.670358
MA0132.10
MA0133.10
MA0135.10.949204
MA0136.11.38624
MA0139.10.155155
MA0140.10.516266
MA0141.10.359385
MA0142.10.724856
MA0143.10.615094
MA0144.11.17059
MA0145.10.220937
MA0146.10.0399277
MA0147.10.681318
MA0148.10.480298
MA0149.10.506665
MA0062.20.942487
MA0035.20.515566
MA0039.20.0817047
MA0138.20.653421
MA0002.23.87123
MA0137.20.321796
MA0104.20.55506
MA0047.20.586412
MA0112.20.79629
MA0065.20.226158
MA0150.10.386144
MA0151.10
MA0152.10.52279
MA0153.11.01778
MA0154.10.577214
MA0155.11.16939
MA0156.10.865715
MA0157.10.697424
MA0158.10
MA0159.10.243637
MA0160.10.495355
MA0161.10
MA0162.10.378102
MA0163.10.141536
MA0164.12.57586
MA0080.21.48508
MA0018.20.599912
MA0099.20.523145
MA0079.21.80475e-05
MA0102.21.46209
MA0258.11.13653
MA0259.10.25092
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

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

TF#promotersEnrichmentp-valueq-value
EBF1#187955.566541779105630.0007445813282558610.0058636200679923



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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C974&oldid=3068091"