Personal tools

Coexpression cluster:C147

From FANTOM5_SSTAR

Revision as of 14:02, 12 September 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C147_Neutrophils_Eosinophils_CD4_CD14_CD8_Natural_Peripheral



Phase1 CAGE Peaks

Hg19::chr10:106095687..106095690,-p@chr10:106095687..106095690
-
Hg19::chr10:11211799..11211810,+p@chr10:11211799..11211810
+
Hg19::chr10:28824063..28824067,+p10@WAC
Hg19::chr10:28830374..28830379,+p@chr10:28830374..28830379
+
Hg19::chr10:49528285..49528289,+p@chr10:49528285..49528289
+
Hg19::chr11:13692276..13692279,+p@chr11:13692276..13692279
+
Hg19::chr11:14666177..14666184,+p18@PDE3B
Hg19::chr11:14676052..14676070,+p@chr11:14676052..14676070
+
Hg19::chr11:14691257..14691272,+p@chr11:14691257..14691272
+
Hg19::chr11:14833595..14833600,+p@chr11:14833595..14833600
+
Hg19::chr11:3758544..3758552,-p@chr11:3758544..3758552
-
Hg19::chr12:92507575..92507580,-p@chr12:92507575..92507580
-
Hg19::chr12:92515098..92515120,-p@chr12:92515098..92515120
-
Hg19::chr12:92515364..92515376,-p@chr12:92515364..92515376
-
Hg19::chr12:92537471..92537501,-p2@BTG1
Hg19::chr13:41576717..41576721,-p@chr13:41576717..41576721
-
Hg19::chr13:96350060..96350064,+p@chr13:96350060..96350064
+
Hg19::chr14:21736117..21736139,-p@chr14:21736117..21736139
-
Hg19::chr14:52329716..52329721,+p@chr14:52329716..52329721
+
Hg19::chr14:52343344..52343346,+p@chr14:52343344..52343346
+
Hg19::chr14:52348441..52348445,+p@chr14:52348441..52348445
+
Hg19::chr14:55739259..55739263,+p@chr14:55739259..55739263
+
Hg19::chr14:60742581..60742585,+p@chr14:60742581..60742585
+
Hg19::chr14:65556471..65556474,-p@chr14:65556471..65556474
-
Hg19::chr14:75178739..75178742,-p@chr14:75178739..75178742
-
Hg19::chr15:63511231..63511235,+p@chr15:63511231..63511235
+
Hg19::chr15:66074183..66074186,-p@chr15:66074183..66074186
-
Hg19::chr15:72805738..72805751,+p@chr15:72805738..72805751
+
Hg19::chr15:80381625..80381629,+p@chr15:80381625..80381629
+
Hg19::chr15:93429811..93429826,+p@chr15:93429811..93429826
+
Hg19::chr15:93449913..93449918,+p@chr15:93449913..93449918
+
Hg19::chr16:48642661..48642667,-p@chr16:48642661..48642667
-
Hg19::chr16:71802092..71802096,-p@chr16:71802092..71802096
-
Hg19::chr16:81480856..81480863,+p@chr16:81480856..81480863
+
Hg19::chr16:81501508..81501512,+p@chr16:81501508..81501512
+
Hg19::chr16:9189493..9189501,+p@chr16:9189493..9189501
+
Hg19::chr17:76740925..76740928,-p@chr17:76740925..76740928
-
Hg19::chr17:8050579..8050590,-p@chr17:8050579..8050590
-
Hg19::chr17:81038499..81038502,+p@chr17:81038499..81038502
+
Hg19::chr19:1075252..1075254,+p@chr19:1075252..1075254
+
Hg19::chr19:1076513..1076515,+p@chr19:1076513..1076515
+
Hg19::chr19:15436959..15436965,-p@chr19:15436959..15436965
-
Hg19::chr19:18608622..18608626,-p@chr19:18608622..18608626
-
Hg19::chr1:156467889..156467894,-p@chr1:156467889..156467894
-
Hg19::chr1:160313765..160313770,+p@chr1:160313765..160313770
+
Hg19::chr1:182286785..182286790,-p@chr1:182286785..182286790
-
Hg19::chr1:19493205..19493209,-p@chr1:19493205..19493209
-
Hg19::chr1:198664623..198664626,+p@chr1:198664623..198664626
+
Hg19::chr1:206868829..206868837,+p@chr1:206868829..206868837
+
Hg19::chr1:22382378..22382383,+p@chr1:22382378..22382383
+
Hg19::chr1:22410852..22410856,+p@chr1:22410852..22410856
+
Hg19::chr1:247041695..247041698,-p@chr1:247041695..247041698
-
Hg19::chr1:65363369..65363374,-p@chr1:65363369..65363374
-
Hg19::chr1:67400268..67400273,+p@chr1:67400268..67400273
+
Hg19::chr20:39659128..39659131,+p@chr20:39659128..39659131
+
Hg19::chr20:43654785..43654789,+p@chr20:43654785..43654789
+
Hg19::chr20:43691658..43691663,+p@chr20:43691658..43691663
+
Hg19::chr20:5553446..5553451,-p@chr20:5553446..5553451
-
Hg19::chr21:38825079..38825081,+p@chr21:38825079..38825081
+
Hg19::chr2:136872815..136872825,-p@chr2:136872815..136872825
-
Hg19::chr2:136872943..136872964,-p@chr2:136872943..136872964
-
Hg19::chr2:144201012..144201015,+p@chr2:144201012..144201015
+
Hg19::chr2:158248047..158248055,-p@chr2:158248047..158248055
-
Hg19::chr2:174805851..174805856,-p@chr2:174805851..174805856
-
Hg19::chr2:175238488..175238492,-p@chr2:175238488..175238492
-
Hg19::chr2:197014899..197014905,-p@chr2:197014899..197014905
-
Hg19::chr2:197025997..197026001,-p@chr2:197025997..197026001
-
Hg19::chr2:201725209..201725222,-p8@CLK1
Hg19::chr2:219103332..219103343,+p3@ARPC2
Hg19::chr2:24482679..24482684,-p@chr2:24482679..24482684
-
Hg19::chr2:30371233..30371243,+p@chr2:30371233..30371243
+
Hg19::chr2:37896373..37896377,-p@chr2:37896373..37896377
-
Hg19::chr3:128471597..128471601,+p@chr3:128471597..128471601
+
Hg19::chr3:151987715..151987726,+p@chr3:151987715..151987726
+
Hg19::chr3:156869824..156869836,-p13@CCNL1
Hg19::chr3:196439003..196439007,+p10@PIGX
Hg19::chr3:63938542..63938545,+p@chr3:63938542..63938545
+
Hg19::chr3:72489507..72489512,-p@chr3:72489507..72489512
-
Hg19::chr3:72491799..72491803,-p@chr3:72491799..72491803
-
Hg19::chr3:72495585..72495599,-p@chr3:72495585..72495599
-
Hg19::chr4:69214189..69214193,-p@chr4:69214189..69214193
-
Hg19::chr5:130602669..130602672,+p@chr5:130602669..130602672
+
Hg19::chr5:130604467..130604471,+p@chr5:130604467..130604471
+
Hg19::chr5:130622100..130622104,+p@chr5:130622100..130622104
+
Hg19::chr5:130659264..130659270,+p@chr5:130659264..130659270
+
Hg19::chr5:130661190..130661194,+p@chr5:130661190..130661194
+
Hg19::chr5:78548176..78548181,+p@chr5:78548176..78548181
+
Hg19::chr5:93326321..93326326,-p@chr5:93326321..93326326
-
Hg19::chr5:98200218..98200222,-p@chr5:98200218..98200222
-
Hg19::chr5:98204026..98204029,-p@chr5:98204026..98204029
-
Hg19::chr6:136592228..136592246,-p@chr6:136592228..136592246
-
Hg19::chr6:138199611..138199623,+p@chr6:138199611..138199623
+
Hg19::chr6:139458784..139458788,+p@chr6:139458784..139458788
+
Hg19::chr6:87879071..87879073,+p@chr6:87879071..87879073
+
Hg19::chr7:104657891..104657894,+p@chr7:104657891..104657894
+
Hg19::chr7:105898066..105898077,-p@chr7:105898066..105898077
-
Hg19::chr7:106528403..106528407,+p@chr7:106528403..106528407
+
Hg19::chr7:112111642..112111647,+p@chr7:112111642..112111647
+
Hg19::chr7:130651643..130651684,-p@chr7:130651643..130651684
-
Hg19::chr7:130748590..130748596,-p@chr7:130748590..130748596
-
Hg19::chr7:130785683..130785693,-p@chr7:130785683..130785693
-
Hg19::chr7:26237801..26237806,-p@chr7:26237801..26237806
-
Hg19::chr7:5248664..5248668,+p@chr7:5248664..5248668
+
Hg19::chr7:95913127..95913131,-p@chr7:95913127..95913131
-
Hg19::chr8:101944512..101944526,-p@chr8:101944512..101944526
-
Hg19::chr8:52795373..52795379,-p@chr8:52795373..52795379
-
Hg19::chr8:53625053..53625058,-p@chr8:53625053..53625058
-
Hg19::chr8:64094817..64094823,+p@chr8:64094817..64094823
+
Hg19::chr8:68253656..68253661,-p@chr8:68253656..68253661
-
Hg19::chrX:12994880..12994894,+p6@TMSB4X
Hg19::chrX:40036135..40036145,+p@chrX:40036135..40036145
+
Hg19::chrX:40949185..40949187,+p@chrX:40949185..40949187
+
Hg19::chrX:41020910..41020914,+p@chrX:41020910..41020914
+
Hg19::chrX:41064902..41064906,+p@chrX:41064902..41064906
+
Hg19::chrX:41207753..41207764,+p@chrX:41207753..41207764
+
Hg19::chrX:44754719..44754727,+p@chrX:44754719..44754727
+
Hg19::chrY:15566813..15566817,-p@chrY:15566813..15566817
-


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:0016607nuclear speck0.0203978334575988
GO:0045603positive regulation of endothelial cell differentiation0.0203978334575988
GO:0016604nuclear body0.0203978334575988
GO:0045601regulation of endothelial cell differentiation0.020814998759357
GO:0004119cGMP-inhibited cyclic-nucleotide phosphodiesterase activity0.020814998759357
GO:0045663positive regulation of myoblast differentiation0.0260160678016211
GO:0065008regulation of biological quality0.0320032852896189
GO:0031018endocrine pancreas development0.0320032852896189
GO:0045661regulation of myoblast differentiation0.0320032852896189
GO:0005885Arp2/3 protein complex0.0320032852896189
GO:0043229intracellular organelle0.0320032852896189
GO:0043226organelle0.0320032852896189
GO:0050796regulation of insulin secretion0.0320032852896189
GO:0031016pancreas development0.0371390172926794
GO:0045446endothelial cell differentiation0.0376086394375892
GO:0045766positive regulation of angiogenesis0.0376086394375892
GO:0006928cell motility0.0376086394375892
GO:0051674localization of cell0.0376086394375892
GO:0030073insulin secretion0.0376086394375892
GO:0042593glucose homeostasis0.0376086394375892
GO:0033500carbohydrate homeostasis0.0376086394375892
GO:0003779actin binding0.0376086394375892
GO:0046883regulation of hormone secretion0.0376086394375892
GO:0030833regulation of actin filament polymerization0.0376086394375892
GO:0002790peptide secretion0.0376086394375892
GO:0030072peptide hormone secretion0.0376086394375892
GO:0044451nucleoplasm part0.0376086394375892
GO:0006479protein amino acid methylation0.0376086394375892
GO:0008213protein amino acid alkylation0.0376086394375892
GO:0005654nucleoplasm0.0419733197076172
GO:0044424intracellular part0.0419733197076172
GO:0045445myoblast differentiation0.0419733197076172
GO:0006506GPI anchor biosynthetic process0.0419733197076172
GO:0006505GPI anchor metabolic process0.0419733197076172
GO:0030041actin filament polymerization0.0419733197076172
GO:0035270endocrine system development0.0419733197076172
GO:0046879hormone secretion0.0419733197076172
GO:0008092cytoskeletal protein binding0.0419733197076172
GO:0046489phosphoinositide biosynthetic process0.0419733197076172
GO:0045765regulation of angiogenesis0.0419733197076172
GO:0015833peptide transport0.0419733197076172
GO:0004715non-membrane spanning protein tyrosine kinase activity0.0419733197076172
GO:0048741skeletal muscle fiber development0.0419733197076172
GO:0048747muscle fiber development0.0419733197076172
GO:0044446intracellular organelle part0.0419733197076172
GO:0044422organelle part0.0419733197076172
GO:0008064regulation of actin polymerization and/or depolymerization0.0419733197076172
GO:0007010cytoskeleton organization and biogenesis0.0419733197076172
GO:00041143',5'-cyclic-nucleotide phosphodiesterase activity0.0419733197076172
GO:0043414biopolymer methylation0.0419733197076172
GO:0031981nuclear lumen0.0419733197076172
GO:0046474glycerophospholipid biosynthetic process0.0419733197076172
GO:0042692muscle cell differentiation0.0419733197076172
GO:0030832regulation of actin filament length0.0419733197076172
GO:0045597positive regulation of cell differentiation0.0419733197076172
GO:0004112cyclic-nucleotide phosphodiesterase activity0.0419733197076172
GO:0032535regulation of cellular component size0.0419733197076172
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.0419733197076172
GO:0008283cell proliferation0.0445836578942313
GO:0006497protein amino acid lipidation0.0445836578942313
GO:0030308negative regulation of cell growth0.0445836578942313
GO:0045792negative regulation of cell size0.0445836578942313
GO:0042158lipoprotein biosynthetic process0.0445836578942313
GO:0051493regulation of cytoskeleton organization and biogenesis0.0445836578942313
GO:0033043regulation of organelle organization and biogenesis0.0445836578942313
GO:0051046regulation of secretion0.0462460849575835
GO:0008154actin polymerization and/or depolymerization0.046397908252683
GO:0045926negative regulation of growth0.046397908252683



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>

Cell Type
Ontology termp-valuen
leukocyte3.98e-51140
hematopoietic stem cell4.12e-51172
angioblastic mesenchymal cell4.12e-51172
hematopoietic oligopotent progenitor cell4.18e-47165
hematopoietic multipotent progenitor cell4.18e-47165
hematopoietic cell3.55e-46182
hematopoietic lineage restricted progenitor cell1.28e-41124
nongranular leukocyte3.80e-41119
myeloid cell1.63e-27112
common myeloid progenitor1.63e-27112
myeloid leukocyte5.68e-2776
CD14-positive, CD16-negative classical monocyte5.68e-2442
granulocyte monocyte progenitor cell1.35e-2271
classical monocyte1.75e-2245
myeloid lineage restricted progenitor cell2.40e-2270
macrophage dendritic cell progenitor6.89e-2265
monopoietic cell6.39e-2163
monocyte6.39e-2163
monoblast6.39e-2163
promonocyte6.39e-2163
lymphocyte1.53e-1753
common lymphoid progenitor1.53e-1753
lymphoid lineage restricted progenitor cell2.52e-1752
T cell2.90e-0925
pro-T cell2.90e-0925
mature alpha-beta T cell1.17e-0818
alpha-beta T cell1.17e-0818
immature T cell1.17e-0818
mature T cell1.17e-0818
immature alpha-beta T cell1.17e-0818
lymphocyte of B lineage1.31e-0724
pro-B cell1.31e-0724
intermediate monocyte9.78e-079
CD14-positive, CD16-positive monocyte9.78e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.70e-26102
blood island1.70e-26102
hemolymphoid system7.64e-24112
bone marrow1.27e-1880
bone element1.27e-1786
immune system9.77e-14115
skeletal element3.41e-12101
skeletal system3.41e-12101
adult organism7.35e-09115
blood1.21e-0715
haemolymphatic fluid1.21e-0715
organism substance1.21e-0715


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

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

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C147&oldid=2136049"