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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C329_Neutrophils_CD14_Monocytederived_Whole_Peripheral_CD14CD16_Eosinophils
|full_id=C329_Neutrophils_CD14_Monocytederived_Whole_Peripheral_CD14CD16_Eosinophils
|gostat_on_coexpression_clusters=GO:0030595!leukocyte chemotaxis!0.00186465716784662!3689;58191$GO:0050900!leukocyte migration!0.00186465716784662!3689;58191$GO:0006928!cell motility!0.0026585079724821!3689;4046;58191$GO:0051674!localization of cell!0.0026585079724821!3689;4046;58191$GO:0042330!taxis!0.0136104827067435!3689;58191$GO:0006935!chemotaxis!0.0136104827067435!3689;58191$GO:0007626!locomotory behavior!0.0183273441445966!3689;58191$GO:0051179!localization!0.0183273441445966!3689;4046;58191;4794;4650$GO:0048247!lymphocyte chemotaxis!0.0194971231181372!58191$GO:0016477!cell migration!0.0194971231181372!3689;58191$GO:0007610!behavior!0.0194971231181372!3689;58191$GO:0015629!actin cytoskeleton!0.0194971231181372!4046;4650$GO:0005031!tumor necrosis factor receptor activity!0.0194971231181372!7133$GO:0043531!ADP binding!0.0194971231181372!4650$GO:0043120!tumor necrosis factor binding!0.0194971231181372!7133$GO:0042994!cytoplasmic sequestering of transcription factor!0.0194971231181372!4794$GO:0005515!protein binding!0.0194971231181372!7133;3689;4046;58191;4794;4650$GO:0005035!death receptor activity!0.0194971231181372!7133$GO:0031941!filamentous actin!0.0194971231181372!4650$GO:0051220!cytoplasmic sequestering of protein!0.0194971231181372!4794$GO:0007159!leukocyte adhesion!0.0194971231181372!3689$GO:0042308!negative regulation of protein import into nucleus!0.0194971231181372!4794$GO:0005041!low-density lipoprotein receptor activity!0.0194971231181372!58191$GO:0042992!negative regulation of transcription factor import into nucleus!0.0194971231181372!4794$GO:0030228!lipoprotein receptor activity!0.0194971231181372!58191$GO:0016043!cellular component organization and biogenesis!0.0194971231181372!3689;58191;4794;4650$GO:0030593!neutrophil chemotaxis!0.0194971231181372!3689$GO:0046823!negative regulation of nucleocytoplasmic transport!0.0194971231181372!4794$GO:0051224!negative regulation of protein transport!0.020391741800133!4794$GO:0000146!microfilament motor activity!0.0227406185699572!4650$GO:0030048!actin filament-based movement!0.0230444884246312!4650$GO:0003779!actin binding!0.0230444884246312!4046;4650$GO:0030169!low-density lipoprotein binding!0.0234255908084133!58191$GO:0004871!signal transducer activity!0.0239176684604469!7133;3689;4046;58191$GO:0060089!molecular transducer activity!0.0239176684604469!7133;3689;4046;58191$GO:0005886!plasma membrane!0.024999223672671!7133;3689;4046;58191$GO:0042990!regulation of transcription factor import into nucleus!0.024999223672671!4794$GO:0042991!transcription factor import into nucleus!0.024999223672671!4794$GO:0042306!regulation of protein import into nucleus!0.024999223672671!4794$GO:0033157!regulation of intracellular protein transport!0.024999223672671!4794$GO:0005100!Rho GTPase activator activity!0.025245053130864!4650$GO:0032507!maintenance of cellular protein localization!0.025245053130864!4794$GO:0051651!maintenance of cellular localization!0.025245053130864!4794$GO:0005884!actin filament!0.025245053130864!4650$GO:0032386!regulation of intracellular transport!0.025245053130864!4794$GO:0045185!maintenance of protein localization!0.0253332009963072!4794$GO:0051223!regulation of protein transport!0.0253332009963072!4794$GO:0050730!regulation of peptidyl-tyrosine phosphorylation!0.0253332009963072!3689$GO:0006952!defense response!0.0253332009963072!3689;4046$GO:0042221!response to chemical stimulus!0.0253332009963072!3689;58191$GO:0046822!regulation of nucleocytoplasmic transport!0.0253332009963072!4794$GO:0008034!lipoprotein binding!0.0253332009963072!58191$GO:0008092!cytoskeletal protein binding!0.0259616498663089!4046;4650$GO:0051051!negative regulation of transport!0.026072739236562!4794$GO:0009605!response to external stimulus!0.0274894677450028!3689;58191$GO:0051235!maintenance of localization!0.031240388662317!4794$GO:0006898!receptor-mediated endocytosis!0.031240388662317!58191$GO:0018108!peptidyl-tyrosine phosphorylation!0.031240388662317!3689$GO:0022603!regulation of anatomical structure morphogenesis!0.031240388662317!3689$GO:0022604!regulation of cell morphogenesis!0.031240388662317!3689$GO:0008360!regulation of cell shape!0.031240388662317!3689$GO:0018212!peptidyl-tyrosine modification!0.032098748068781!3689$GO:0001932!regulation of protein amino acid phosphorylation!0.032098748068781!3689$GO:0033238!regulation of amine metabolic process!0.032098748068781!3689$GO:0006521!regulation of amino acid metabolic process!0.032098748068781!3689$GO:0008305!integrin complex!0.0377674227227657!3689$GO:0019992!diacylglycerol binding!0.0397003874994354!4650$GO:0006915!apoptosis!0.0397003874994354!7133;3689$GO:0012501!programmed cell death!0.0397411315633756!7133;3689$GO:0042325!regulation of phosphorylation!0.0402532619818485!3689$GO:0048471!perinuclear region of cytoplasm!0.0402532619818485!4650$GO:0005938!cell cortex!0.0402532619818485!4650$GO:0008219!cell death!0.0405564525700531!7133;3689$GO:0016265!death!0.0405564525700531!7133;3689$GO:0046907!intracellular transport!0.0405564525700531!4794;4650$GO:0051174!regulation of phosphorus metabolic process!0.0405620894408165!3689$GO:0019220!regulation of phosphate metabolic process!0.0405620894408165!3689$GO:0006968!cellular defense response!0.041771960764272!4046$GO:0005044!scavenger receptor activity!0.0418123338046793!58191$GO:0008009!chemokine activity!0.0429751365009146!58191$GO:0042379!chemokine receptor binding!0.0429992657534742!58191$GO:0019901!protein kinase binding!0.0457603802830525!3689$GO:0007229!integrin-mediated signaling pathway!0.0468307135085685!3689$GO:0006606!protein import into nucleus!0.0496597971651375!4794$GO:0051649!establishment of cellular localization!0.0496597971651375!4794;4650$GO:0004872!receptor activity!0.0496597971651375!7133;3689;58191$GO:0051170!nuclear import!0.0496597971651375!4794$GO:0019955!cytokine binding!0.0496597971651375!7133$GO:0007160!cell-matrix adhesion!0.0496597971651375!3689$GO:0019900!kinase binding!0.0496597971651375!3689
|id=C329
|id=C329
}}
}}

Revision as of 17:38, 18 May 2012


Full id: C329_Neutrophils_CD14_Monocytederived_Whole_Peripheral_CD14CD16_Eosinophils



Phase1 CAGE Peaks

Hg19::chr10:43674712..43674716,+p@chr10:43674712..43674716
+
Hg19::chr11:1902698..1902719,+p@chr11:1902698..1902719
+
Hg19::chr11:1905512..1905526,+p8@LSP1
Hg19::chr11:63978537..63978551,+p@chr11:63978537..63978551
+
Hg19::chr14:70180571..70180575,+p@chr14:70180571..70180575
+
Hg19::chr17:4619269..4619294,+p@chr17:4619269..4619294
+
Hg19::chr17:4619437..4619453,+p@chr17:4619437..4619453
+
Hg19::chr17:4637676..4637701,-p@chr17:4637676..4637701
-
Hg19::chr17:4638647..4638678,-p@chr17:4638647..4638678
-
Hg19::chr17:4638695..4638723,-p@chr17:4638695..4638723
-
Hg19::chr17:4642951..4642958,-p11@CXCL16
Hg19::chr19:17212998..17213013,+p3@MYO9B
Hg19::chr19:36398208..36398215,-p@chr19:36398208..36398215
-
Hg19::chr19:46021252..46021263,+p@chr19:46021252..46021263
+
Hg19::chr19:52146610..52146625,-p@chr19:52146610..52146625
-
Hg19::chr1:111441743..111441763,+p@chr1:111441743..111441763
+
Hg19::chr1:12248850..12248869,+p2@TNFRSF1B
Hg19::chr1:12251915..12251946,+p3@TNFRSF1B
Hg19::chr1:12252955..12252987,+p@chr1:12252955..12252987
+
Hg19::chr1:12252996..12253018,+p@chr1:12252996..12253018
+
Hg19::chr1:15755309..15755321,+p11@EFHD2
Hg19::chr1:183532611..183532622,-p@chr1:183532611..183532622
-
Hg19::chr1:183536107..183536129,-p@chr1:183536107..183536129
-
Hg19::chr1:27939407..27939421,-p@chr1:27939407..27939421
-
Hg19::chr1:27943424..27943442,-p@chr1:27943424..27943442
-
Hg19::chr1:31211863..31211872,-p@chr1:31211863..31211872
-
Hg19::chr1:31214479..31214495,+p@chr1:31214479..31214495
+
Hg19::chr21:46313414..46313448,-p8@ITGB2
Hg19::chr21:46320367..46320390,-p@chr21:46320367..46320390
-
Hg19::chr21:46321607..46321655,-p@chr21:46321607..46321655
-
Hg19::chr21:46323401..46323419,-p@chr21:46323401..46323419
-
Hg19::chr2:178121224..178121228,-p1@MIR3128
Hg19::chr2:219252546..219252572,+p@chr2:219252546..219252572
+
Hg19::chr6:44232765..44232778,-p5@NFKBIE
Hg19::chr7:139661798..139661815,+p@chr7:139661798..139661815
+


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:0030595leukocyte chemotaxis0.00186465716784662
GO:0050900leukocyte migration0.00186465716784662
GO:0006928cell motility0.0026585079724821
GO:0051674localization of cell0.0026585079724821
GO:0042330taxis0.0136104827067435
GO:0006935chemotaxis0.0136104827067435
GO:0007626locomotory behavior0.0183273441445966
GO:0051179localization0.0183273441445966
GO:0048247lymphocyte chemotaxis0.0194971231181372
GO:0016477cell migration0.0194971231181372
GO:0007610behavior0.0194971231181372
GO:0015629actin cytoskeleton0.0194971231181372
GO:0005031tumor necrosis factor receptor activity0.0194971231181372
GO:0043531ADP binding0.0194971231181372
GO:0043120tumor necrosis factor binding0.0194971231181372
GO:0042994cytoplasmic sequestering of transcription factor0.0194971231181372
GO:0005515protein binding0.0194971231181372
GO:0005035death receptor activity0.0194971231181372
GO:0031941filamentous actin0.0194971231181372
GO:0051220cytoplasmic sequestering of protein0.0194971231181372
GO:0007159leukocyte adhesion0.0194971231181372
GO:0042308negative regulation of protein import into nucleus0.0194971231181372
GO:0005041low-density lipoprotein receptor activity0.0194971231181372
GO:0042992negative regulation of transcription factor import into nucleus0.0194971231181372
GO:0030228lipoprotein receptor activity0.0194971231181372
GO:0016043cellular component organization and biogenesis0.0194971231181372
GO:0030593neutrophil chemotaxis0.0194971231181372
GO:0046823negative regulation of nucleocytoplasmic transport0.0194971231181372
GO:0051224negative regulation of protein transport0.020391741800133
GO:0000146microfilament motor activity0.0227406185699572
GO:0030048actin filament-based movement0.0230444884246312
GO:0003779actin binding0.0230444884246312
GO:0030169low-density lipoprotein binding0.0234255908084133
GO:0004871signal transducer activity0.0239176684604469
GO:0060089molecular transducer activity0.0239176684604469
GO:0005886plasma membrane0.024999223672671
GO:0042990regulation of transcription factor import into nucleus0.024999223672671
GO:0042991transcription factor import into nucleus0.024999223672671
GO:0042306regulation of protein import into nucleus0.024999223672671
GO:0033157regulation of intracellular protein transport0.024999223672671
GO:0005100Rho GTPase activator activity0.025245053130864
GO:0032507maintenance of cellular protein localization0.025245053130864
GO:0051651maintenance of cellular localization0.025245053130864
GO:0005884actin filament0.025245053130864
GO:0032386regulation of intracellular transport0.025245053130864
GO:0045185maintenance of protein localization0.0253332009963072
GO:0051223regulation of protein transport0.0253332009963072
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.0253332009963072
GO:0006952defense response0.0253332009963072
GO:0042221response to chemical stimulus0.0253332009963072
GO:0046822regulation of nucleocytoplasmic transport0.0253332009963072
GO:0008034lipoprotein binding0.0253332009963072
GO:0008092cytoskeletal protein binding0.0259616498663089
GO:0051051negative regulation of transport0.026072739236562
GO:0009605response to external stimulus0.0274894677450028
GO:0051235maintenance of localization0.031240388662317
GO:0006898receptor-mediated endocytosis0.031240388662317
GO:0018108peptidyl-tyrosine phosphorylation0.031240388662317
GO:0022603regulation of anatomical structure morphogenesis0.031240388662317
GO:0022604regulation of cell morphogenesis0.031240388662317
GO:0008360regulation of cell shape0.031240388662317
GO:0018212peptidyl-tyrosine modification0.032098748068781
GO:0001932regulation of protein amino acid phosphorylation0.032098748068781
GO:0033238regulation of amine metabolic process0.032098748068781
GO:0006521regulation of amino acid metabolic process0.032098748068781
GO:0008305integrin complex0.0377674227227657
GO:0019992diacylglycerol binding0.0397003874994354
GO:0006915apoptosis0.0397003874994354
GO:0012501programmed cell death0.0397411315633756
GO:0042325regulation of phosphorylation0.0402532619818485
GO:0048471perinuclear region of cytoplasm0.0402532619818485
GO:0005938cell cortex0.0402532619818485
GO:0008219cell death0.0405564525700531
GO:0016265death0.0405564525700531
GO:0046907intracellular transport0.0405564525700531
GO:0051174regulation of phosphorus metabolic process0.0405620894408165
GO:0019220regulation of phosphate metabolic process0.0405620894408165
GO:0006968cellular defense response0.041771960764272
GO:0005044scavenger receptor activity0.0418123338046793
GO:0008009chemokine activity0.0429751365009146
GO:0042379chemokine receptor binding0.0429992657534742
GO:0019901protein kinase binding0.0457603802830525
GO:0007229integrin-mediated signaling pathway0.0468307135085685
GO:0006606protein import into nucleus0.0496597971651375
GO:0051649establishment of cellular localization0.0496597971651375
GO:0004872receptor activity0.0496597971651375
GO:0051170nuclear import0.0496597971651375
GO:0019955cytokine binding0.0496597971651375
GO:0007160cell-matrix adhesion0.0496597971651375
GO:0019900kinase binding0.0496597971651375



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

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

This analysis result is provided for C0 - C305 clusters.

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