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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C174_CD14_Neutrophils_Smooth_mesothelioma_embryonic_Monocytederived_Eosinophils
|full_id=C174_CD14_Neutrophils_Smooth_mesothelioma_embryonic_Monocytederived_Eosinophils
|gostat_on_coexpression_clusters=GO:0045523!interleukin-27 receptor binding!0.012211741008308!246778$GO:0045625!regulation of T-helper 1 cell differentiation!0.012211741008308!246778$GO:0045063!T-helper 1 cell differentiation!0.012211741008308!246778$GO:0042787!protein ubiquitination during ubiquitin-dependent protein catabolic process!0.012211741008308!255488$GO:0045622!regulation of T-helper cell differentiation!0.012211741008308!246778$GO:0045078!positive regulation of interferon-gamma biosynthetic process!0.012211741008308!246778$GO:0002294!CD4-positive, alpha-beta T cell differentiation during immune response!0.012211741008308!246778$GO:0002292!T cell differentiation during immune response!0.012211741008308!246778$GO:0042093!T-helper cell differentiation!0.012211741008308!246778$GO:0002366!leukocyte activation during immune response!0.012211741008308!246778$GO:0002285!lymphocyte activation during immune response!0.012211741008308!246778$GO:0002293!alpha-beta T cell differentiation during immune response!0.012211741008308!246778$GO:0002286!T cell activation during immune response!0.012211741008308!246778$GO:0002263!cell activation during immune response!0.012211741008308!246778$GO:0043367!CD4-positive, alpha beta T cell differentiation!0.012211741008308!246778$GO:0045072!regulation of interferon-gamma biosynthetic process!0.012211741008308!246778$GO:0042088!T-helper 1 type immune response!0.012211741008308!246778$GO:0042095!interferon-gamma biosynthetic process!0.0124938684735764!246778$GO:0046632!alpha-beta T cell differentiation!0.0145658197070558!246778$GO:0032609!interferon-gamma production!0.0155658449870154!246778$GO:0046631!alpha-beta T cell activation!0.0156475129463439!246778$GO:0042129!regulation of T cell proliferation!0.0267103489548182!246778$GO:0042098!T cell proliferation!0.0268754292715547!246778$GO:0042108!positive regulation of cytokine biosynthetic process!0.0268754292715547!246778$GO:0030217!T cell differentiation!0.0268754292715547!246778$GO:0050670!regulation of lymphocyte proliferation!0.0268754292715547!246778$GO:0032944!regulation of mononuclear cell proliferation!0.0268754292715547!246778$GO:0032943!mononuclear cell proliferation!0.0305079837093949!246778$GO:0045727!positive regulation of translation!0.0305079837093949!246778$GO:0046651!lymphocyte proliferation!0.0305079837093949!246778$GO:0050863!regulation of T cell activation!0.0313878759468907!246778$GO:0042035!regulation of cytokine biosynthetic process!0.0313878759468907!246778$GO:0031328!positive regulation of cellular biosynthetic process!0.0313878759468907!246778$GO:0030098!lymphocyte differentiation!0.0316256848458442!246778$GO:0042089!cytokine biosynthetic process!0.0316256848458442!246778$GO:0042107!cytokine metabolic process!0.0316256848458442!246778$GO:0009891!positive regulation of biosynthetic process!0.0316256848458442!246778$GO:0016567!protein ubiquitination!0.0316256848458442!255488$GO:0002250!adaptive immune response!0.0316256848458442!246778$GO:0002460!adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains!0.0316256848458442!246778$GO:0051249!regulation of lymphocyte activation!0.0316256848458442!246778$GO:0032446!protein modification by small protein conjugation!0.0316256848458442!255488$GO:0050865!regulation of cell activation!0.0320894655001998!246778$GO:0000151!ubiquitin ligase complex!0.0323258815618499!255488$GO:0051247!positive regulation of protein metabolic process!0.0323258815618499!246778$GO:0051536!iron-sulfur cluster binding!0.0323258815618499!255488$GO:0002521!leukocyte differentiation!0.0323258815618499!246778$GO:0051540!metal cluster binding!0.0323258815618499!255488$GO:0042110!T cell activation!0.0344687565798637!246778$GO:0001816!cytokine production!0.0389238922781131!246778$GO:0048869!cellular developmental process!0.0447761208584112!255488;246778$GO:0030154!cell differentiation!0.0447761208584112!255488;246778$GO:0045595!regulation of cell differentiation!0.0467304104186421!246778$GO:0046649!lymphocyte activation!0.049344620573025!246778
|id=C174
|id=C174
}}
}}

Revision as of 17:35, 18 May 2012


Full id: C174_CD14_Neutrophils_Smooth_mesothelioma_embryonic_Monocytederived_Eosinophils



Phase1 CAGE Peaks

Hg19::chr10:104160765..104160775,+p@chr10:104160765..104160775
+
Hg19::chr10:91064212..91064218,+p@chr10:91064212..91064218
+
Hg19::chr10:91066585..91066596,+p@chr10:91066585..91066596
+
Hg19::chr10:91066632..91066642,+p@chr10:91066632..91066642
+
Hg19::chr10:91066692..91066705,+p@chr10:91066692..91066705
+
Hg19::chr10:91066836..91066845,+p@chr10:91066836..91066845
+
Hg19::chr10:91067074..91067087,+p@chr10:91067074..91067087
+
Hg19::chr10:91067335..91067346,+p2@AF026944
Hg19::chr10:91067543..91067553,+p4@AF026944
Hg19::chr10:91098875..91098881,+p8@IFIT3
Hg19::chr10:91099205..91099221,+p@chr10:91099205..91099221
+
Hg19::chr10:91099381..91099392,+p@chr10:91099381..91099392
+
Hg19::chr10:91099524..91099535,+p@chr10:91099524..91099535
+
Hg19::chr10:91099822..91099840,+p@chr10:91099822..91099840
+
Hg19::chr10:91100385..91100400,+p1@AF026943
Hg19::chr13:43466640..43466643,-p@chr13:43466640..43466643
-
Hg19::chr13:43527382..43527387,-p@chr13:43527382..43527387
-
Hg19::chr13:77523604..77523611,+p@chr13:77523604..77523611
+
Hg19::chr13:77523659..77523668,+p@chr13:77523659..77523668
+
Hg19::chr13:77523716..77523728,+p@chr13:77523716..77523728
+
Hg19::chr13:77523731..77523760,+p@chr13:77523731..77523760
+
Hg19::chr13:77523801..77523815,+p@chr13:77523801..77523815
+
Hg19::chr13:77523867..77523878,+p@chr13:77523867..77523878
+
Hg19::chr13:77523885..77523908,+p@chr13:77523885..77523908
+
Hg19::chr13:77523928..77523953,+p@chr13:77523928..77523953
+
Hg19::chr13:77523974..77523977,+p@chr13:77523974..77523977
+
Hg19::chr13:77524004..77524015,+p@chr13:77524004..77524015
+
Hg19::chr13:77524020..77524025,+p@chr13:77524020..77524025
+
Hg19::chr13:77524100..77524108,+p@chr13:77524100..77524108
+
Hg19::chr13:77524143..77524160,-p@chr13:77524143..77524160
-
Hg19::chr13:77524293..77524304,+p@chr13:77524293..77524304
+
Hg19::chr13:77524315..77524323,+p@chr13:77524315..77524323
+
Hg19::chr13:77524327..77524341,+p@chr13:77524327..77524341
+
Hg19::chr13:77524439..77524449,+p@chr13:77524439..77524449
+
Hg19::chr13:77524465..77524486,+p@chr13:77524465..77524486
+
Hg19::chr13:77524669..77524674,+p@chr13:77524669..77524674
+
Hg19::chr13:77524780..77524802,+p@chr13:77524780..77524802
+
Hg19::chr13:77524836..77524855,+p@chr13:77524836..77524855
+
Hg19::chr13:77525063..77525075,+p@chr13:77525063..77525075
+
Hg19::chr13:77525104..77525111,+p@chr13:77525104..77525111
+
Hg19::chr13:77526078..77526093,+p@chr13:77526078..77526093
+
Hg19::chr13:77526602..77526613,+p2@IRG1
Hg19::chr13:77527823..77527839,+p@chr13:77527823..77527839
+
Hg19::chr13:77529551..77529562,+p@chr13:77529551..77529562
+
Hg19::chr13:77529598..77529625,+p@chr13:77529598..77529625
+
Hg19::chr13:77531401..77531411,+p@chr13:77531401..77531411
+
Hg19::chr13:77531942..77531948,+p@chr13:77531942..77531948
+
Hg19::chr13:77532118..77532127,+p@chr13:77532118..77532127
+
Hg19::chr13:77532353..77532362,+p@chr13:77532353..77532362
+
Hg19::chr13:77532575..77532588,+p@chr13:77532575..77532588
+
Hg19::chr14:23317235..23317240,+p@chr14:23317235..23317240
+
Hg19::chr15:39557638..39557647,-p@chr15:39557638..39557647
-
Hg19::chr15:45948197..45948201,+p@chr15:45948197..45948201
+
Hg19::chr16:28518153..28518187,-p1@IL27
Hg19::chr16:28518346..28518378,+p@chr16:28518346..28518378
+
Hg19::chr17:14295218..14295226,+p@chr17:14295218..14295226
+
Hg19::chr17:41375281..41375285,+p@chr17:41375281..41375285
+
Hg19::chr18:57570198..57570221,+p@chr18:57570198..57570221
+
Hg19::chr18:57570353..57570374,+p@chr18:57570353..57570374
+
Hg19::chr19:35494139..35494155,-p@chr19:35494139..35494155
-
Hg19::chr1:157082506..157082509,-p@chr1:157082506..157082509
-
Hg19::chr1:79127415..79127445,+p@chr1:79127415..79127445
+
Hg19::chr1:8064977..8064981,-p@chr1:8064977..8064981
-
Hg19::chr20:19916038..19916060,+p@chr20:19916038..19916060
+
Hg19::chr20:19920057..19920064,+p@chr20:19920057..19920064
+
Hg19::chr20:19977319..19977334,+p@chr20:19977319..19977334
+
Hg19::chr2:113534770..113534781,-p@chr2:113534770..113534781
-
Hg19::chr2:152170811..152170815,-p@chr2:152170811..152170815
-
Hg19::chr2:152193688..152193700,-p@chr2:152193688..152193700
-
Hg19::chr2:152219301..152219305,+p@chr2:152219301..152219305
+
Hg19::chr2:152231734..152231766,+p@chr2:152231734..152231766
+
Hg19::chr2:163134134..163134143,-p@chr2:163134134..163134143
-
Hg19::chr2:163154392..163154394,-p@chr2:163154392..163154394
-
Hg19::chr2:173939494..173939525,-p@chr2:173939494..173939525
-
Hg19::chr2:223310826..223310832,+p@chr2:223310826..223310832
+
Hg19::chr4:103212519..103212530,-p@chr4:103212519..103212530
-
Hg19::chr4:103213023..103213027,-p@chr4:103213023..103213027
-
Hg19::chr4:185765733..185765737,+p@chr4:185765733..185765737
+
Hg19::chr4:185774396..185774408,-p@chr4:185774396..185774408
-
Hg19::chr5:159905166..159905205,+p@chr5:159905166..159905205
+
Hg19::chr5:90607150..90607158,-p@chr5:90607150..90607158
-
Hg19::chr6:136917108..136917113,+p@chr6:136917108..136917113
+
Hg19::chr6:143237311..143237314,-p@chr6:143237311..143237314
-
Hg19::chr6:18467649..18467652,+p3@RNF144B
Hg19::chr7:22767500..22767518,+p@chr7:22767500..22767518
+
Hg19::chr7:22769276..22769283,+p@chr7:22769276..22769283
+
Hg19::chr7:37731277..37731281,-p@chr7:37731277..37731281
-
Hg19::chr8:123916899..123916917,+p@chr8:123916899..123916917
+
Hg19::chr8:23402147..23402156,+p@chr8:23402147..23402156
+
Hg19::chr8:79741110..79741114,+p@chr8:79741110..79741114
+
Hg19::chr8:79741203..79741212,+p@chr8:79741203..79741212
+
Hg19::chr8:79742160..79742165,+p@chr8:79742160..79742165
+
Hg19::chr9:117754052..117754067,-p@chr9:117754052..117754067
-
Hg19::chr9:123666399..123666408,-p@chr9:123666399..123666408
-
Hg19::chr9:123666433..123666454,+p@chr9:123666433..123666454
+
Hg19::chr9:123666898..123666910,-p@chr9:123666898..123666910
-
Hg19::chr9:32445457..32445459,-p@chr9:32445457..32445459
-
Hg19::chr9:32491708..32491712,-p@chr9:32491708..32491712
-
Hg19::chr9:32523976..32523988,-p@chr9:32523976..32523988
-
Hg19::chr9:32524255..32524274,-p@chr9:32524255..32524274
-


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:0045523interleukin-27 receptor binding0.012211741008308
GO:0045625regulation of T-helper 1 cell differentiation0.012211741008308
GO:0045063T-helper 1 cell differentiation0.012211741008308
GO:0042787protein ubiquitination during ubiquitin-dependent protein catabolic process0.012211741008308
GO:0045622regulation of T-helper cell differentiation0.012211741008308
GO:0045078positive regulation of interferon-gamma biosynthetic process0.012211741008308
GO:0002294CD4-positive, alpha-beta T cell differentiation during immune response0.012211741008308
GO:0002292T cell differentiation during immune response0.012211741008308
GO:0042093T-helper cell differentiation0.012211741008308
GO:0002366leukocyte activation during immune response0.012211741008308
GO:0002285lymphocyte activation during immune response0.012211741008308
GO:0002293alpha-beta T cell differentiation during immune response0.012211741008308
GO:0002286T cell activation during immune response0.012211741008308
GO:0002263cell activation during immune response0.012211741008308
GO:0043367CD4-positive, alpha beta T cell differentiation0.012211741008308
GO:0045072regulation of interferon-gamma biosynthetic process0.012211741008308
GO:0042088T-helper 1 type immune response0.012211741008308
GO:0042095interferon-gamma biosynthetic process0.0124938684735764
GO:0046632alpha-beta T cell differentiation0.0145658197070558
GO:0032609interferon-gamma production0.0155658449870154
GO:0046631alpha-beta T cell activation0.0156475129463439
GO:0042129regulation of T cell proliferation0.0267103489548182
GO:0042098T cell proliferation0.0268754292715547
GO:0042108positive regulation of cytokine biosynthetic process0.0268754292715547
GO:0030217T cell differentiation0.0268754292715547
GO:0050670regulation of lymphocyte proliferation0.0268754292715547
GO:0032944regulation of mononuclear cell proliferation0.0268754292715547
GO:0032943mononuclear cell proliferation0.0305079837093949
GO:0045727positive regulation of translation0.0305079837093949
GO:0046651lymphocyte proliferation0.0305079837093949
GO:0050863regulation of T cell activation0.0313878759468907
GO:0042035regulation of cytokine biosynthetic process0.0313878759468907
GO:0031328positive regulation of cellular biosynthetic process0.0313878759468907
GO:0030098lymphocyte differentiation0.0316256848458442
GO:0042089cytokine biosynthetic process0.0316256848458442
GO:0042107cytokine metabolic process0.0316256848458442
GO:0009891positive regulation of biosynthetic process0.0316256848458442
GO:0016567protein ubiquitination0.0316256848458442
GO:0002250adaptive immune response0.0316256848458442
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0316256848458442
GO:0051249regulation of lymphocyte activation0.0316256848458442
GO:0032446protein modification by small protein conjugation0.0316256848458442
GO:0050865regulation of cell activation0.0320894655001998
GO:0000151ubiquitin ligase complex0.0323258815618499
GO:0051247positive regulation of protein metabolic process0.0323258815618499
GO:0051536iron-sulfur cluster binding0.0323258815618499
GO:0002521leukocyte differentiation0.0323258815618499
GO:0051540metal cluster binding0.0323258815618499
GO:0042110T cell activation0.0344687565798637
GO:0001816cytokine production0.0389238922781131
GO:0048869cellular developmental process0.0447761208584112
GO:0030154cell differentiation0.0447761208584112
GO:0045595regulation of cell differentiation0.0467304104186421
GO:0046649lymphocyte activation0.049344620573025



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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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