Personal tools

Coexpression cluster:C1218: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C1218_hairy_plasma_lymphoma_xeroderma_hereditary_mycosis_splenic |id=C1218 }}")
 
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1218_hairy_plasma_lymphoma_xeroderma_hereditary_mycosis_splenic
|full_id=C1218_hairy_plasma_lymphoma_xeroderma_hereditary_mycosis_splenic
|gostat_on_coexpression_clusters=GO:0042610!CD8 receptor binding!0.00549074903622083!3932$GO:0050862!positive regulation of T cell receptor signaling pathway!0.00549074903622083!3932$GO:0042609!CD4 receptor binding!0.00549074903622083!3932$GO:0051117!ATPase binding!0.00549074903622083!3932$GO:0006882!cellular zinc ion homeostasis!0.00549074903622083!3932$GO:0055069!zinc ion homeostasis!0.00549074903622083!3932$GO:0043548!phosphoinositide 3-kinase binding!0.00549074903622083!3932$GO:0001948!glycoprotein binding!0.00549074903622083!3932$GO:0050857!positive regulation of antigen receptor-mediated signaling pathway!0.00549074903622083!3932$GO:0000242!pericentriolar material!0.00549074903622083!3932$GO:0050856!regulation of T cell receptor signaling pathway!0.00549074903622083!3932$GO:0051283!negative regulation of sequestering of calcium ion!0.00575204393640925!3932$GO:0051282!regulation of sequestering of calcium ion!0.00575204393640925!3932$GO:0051209!release of sequestered calcium ion into cytosol!0.00575204393640925!3932$GO:0051208!sequestering of calcium ion!0.00629111284022556!3932$GO:0050854!regulation of antigen receptor-mediated signaling pathway!0.00629111284022556!3932$GO:0051238!sequestering of metal ion!0.00769702166833902!3932$GO:0050852!T cell receptor signaling pathway!0.0095055909313886!3932$GO:0042169!SH2 domain binding!0.00953487963183759!3932$GO:0044450!microtubule organizing center part!0.0115734324519592!3932$GO:0050851!antigen receptor-mediated signaling pathway!0.0129384792222954!3932$GO:0002429!immune response-activating cell surface receptor signaling pathway!0.0132823318112429!3932$GO:0002768!immune response-regulating cell surface receptor signaling pathway!0.0132823318112429!3932$GO:0002757!immune response-activating signal transduction!0.0132823318112429!3932$GO:0002764!immune response-regulating signal transduction!0.0132823318112429!3932$GO:0004715!non-membrane spanning protein tyrosine kinase activity!0.0142244370855518!3932$GO:0050870!positive regulation of T cell activation!0.0142244370855518!3932$GO:0030217!T cell differentiation!0.0142244370855518!3932$GO:0051235!maintenance of localization!0.0142244370855518!3932$GO:0006919!caspase activation!0.0149284042553036!3932$GO:0045121!lipid raft!0.0149284042553036!3932$GO:0043280!positive regulation of caspase activity!0.0155468175678466!3932$GO:0051251!positive regulation of lymphocyte activation!0.0155468175678466!3932$GO:0050863!regulation of T cell activation!0.0172038426275883!3932$GO:0043281!regulation of caspase activity!0.0172038426275883!3932$GO:0042493!response to drug!0.0172038426275883!3932$GO:0030098!lymphocyte differentiation!0.0172038426275883!3932$GO:0004722!protein serine/threonine phosphatase activity!0.0172038426275883!3932$GO:0051480!cytosolic calcium ion homeostasis!0.0173694565847348!3932$GO:0007204!elevation of cytosolic calcium ion concentration!0.0173694565847348!3932$GO:0002253!activation of immune response!0.0173694565847348!3932$GO:0008022!protein C-terminus binding!0.0173694565847348!3932$GO:0051345!positive regulation of hydrolase activity!0.0173694565847348!3932$GO:0051249!regulation of lymphocyte activation!0.0173694565847348!3932$GO:0050865!regulation of cell activation!0.0178762817634228!3932$GO:0019901!protein kinase binding!0.0180143473637898!3932$GO:0050778!positive regulation of immune response!0.0180143473637898!3932$GO:0002684!positive regulation of immune system process!0.0180143473637898!3932$GO:0008632!apoptotic program!0.0180970681862679!3932$GO:0002521!leukocyte differentiation!0.0180970681862679!3932$GO:0050776!regulation of immune response!0.0186156389784673!3932$GO:0042110!T cell activation!0.0186156389784673!3932$GO:0019900!kinase binding!0.0186156389784673!3932$GO:0002682!regulation of immune system process!0.0186156389784673!3932$GO:0051240!positive regulation of multicellular organismal process!0.0191896170851969!3932$GO:0006874!cellular calcium ion homeostasis!0.0204527827727977!3932$GO:0055074!calcium ion homeostasis!0.0204527827727977!3932$GO:0006875!cellular metal ion homeostasis!0.0209496874891393!3932$GO:0055065!metal ion homeostasis!0.0209496874891393!3932$GO:0019904!protein domain specific binding!0.0212493622807121!3932$GO:0005813!centrosome!0.0212493622807121!3932$GO:0005815!microtubule organizing center!0.0238175112989571!3932$GO:0046649!lymphocyte activation!0.0247121557886227!3932$GO:0030097!hemopoiesis!0.025265444591113!3932$GO:0048534!hemopoietic or lymphoid organ development!0.0266282153137071!3932$GO:0045321!leukocyte activation!0.0266282153137071!3932$GO:0030005!cellular di-, tri-valent inorganic cation homeostasis!0.0266282153137071!3932$GO:0002520!immune system development!0.0266282153137071!3932$GO:0055066!di-, tri-valent inorganic cation homeostasis!0.0266282153137071!3932$GO:0030003!cellular cation homeostasis!0.0286789366588777!3932$GO:0055080!cation homeostasis!0.0286978621515081!3932$GO:0001775!cell activation!0.0288865464751273!3932$GO:0006917!induction of apoptosis!0.0288865464751273!3932$GO:0012502!induction of programmed cell death!0.0288865464751273!3932$GO:0055082!cellular chemical homeostasis!0.0312844536056327!3932$GO:0006873!cellular ion homeostasis!0.0312844536056327!3932$GO:0043085!positive regulation of catalytic activity!0.0327530472383582!3932$GO:0043065!positive regulation of apoptosis!0.0327530472383582!3932$GO:0043068!positive regulation of programmed cell death!0.0327530472383582!3932$GO:0050801!ion homeostasis!0.0334674497335767!3932$GO:0051239!regulation of multicellular organismal process!0.0342871919098899!3932$GO:0048878!chemical homeostasis!0.0361962874839148!3932$GO:0019899!enzyme binding!0.0361962874839148!3932$GO:0004713!protein-tyrosine kinase activity!0.0361962874839148!3932$GO:0051336!regulation of hydrolase activity!0.0361962874839148!3932$GO:0004721!phosphoprotein phosphatase activity!0.0364713582468456!3932$GO:0019725!cellular homeostasis!0.0431538693944755!3932$GO:0007265!Ras protein signal transduction!0.0491068728919253!3932$GO:0016791!phosphoric monoester hydrolase activity!0.0492251115653811!3932
|id=C1218
|id=C1218
}}
}}

Revision as of 17:34, 18 May 2012


Full id: C1218_hairy_plasma_lymphoma_xeroderma_hereditary_mycosis_splenic



Phase1 CAGE Peaks

Hg19::chr16:29656517..29656522,-p@chr16:29656517..29656522
-
Hg19::chr1:32716592..32716596,+p5@LCK
Hg19::chr20:52675557..52675561,-p4@BCAS1
Hg19::chr4:36334205..36334210,-p@chr4:36334205..36334210
-
Hg19::chr6:109196481..109196488,+p@chr6:109196481..109196488
+
Hg19::chr6:160351875..160351879,-p@chr6:160351875..160351879
-
Hg19::chr8:101512336..101512341,-p@chr8:101512336..101512341
-


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:0042610CD8 receptor binding0.00549074903622083
GO:0050862positive regulation of T cell receptor signaling pathway0.00549074903622083
GO:0042609CD4 receptor binding0.00549074903622083
GO:0051117ATPase binding0.00549074903622083
GO:0006882cellular zinc ion homeostasis0.00549074903622083
GO:0055069zinc ion homeostasis0.00549074903622083
GO:0043548phosphoinositide 3-kinase binding0.00549074903622083
GO:0001948glycoprotein binding0.00549074903622083
GO:0050857positive regulation of antigen receptor-mediated signaling pathway0.00549074903622083
GO:0000242pericentriolar material0.00549074903622083
GO:0050856regulation of T cell receptor signaling pathway0.00549074903622083
GO:0051283negative regulation of sequestering of calcium ion0.00575204393640925
GO:0051282regulation of sequestering of calcium ion0.00575204393640925
GO:0051209release of sequestered calcium ion into cytosol0.00575204393640925
GO:0051208sequestering of calcium ion0.00629111284022556
GO:0050854regulation of antigen receptor-mediated signaling pathway0.00629111284022556
GO:0051238sequestering of metal ion0.00769702166833902
GO:0050852T cell receptor signaling pathway0.0095055909313886
GO:0042169SH2 domain binding0.00953487963183759
GO:0044450microtubule organizing center part0.0115734324519592
GO:0050851antigen receptor-mediated signaling pathway0.0129384792222954
GO:0002429immune response-activating cell surface receptor signaling pathway0.0132823318112429
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0132823318112429
GO:0002757immune response-activating signal transduction0.0132823318112429
GO:0002764immune response-regulating signal transduction0.0132823318112429
GO:0004715non-membrane spanning protein tyrosine kinase activity0.0142244370855518
GO:0050870positive regulation of T cell activation0.0142244370855518
GO:0030217T cell differentiation0.0142244370855518
GO:0051235maintenance of localization0.0142244370855518
GO:0006919caspase activation0.0149284042553036
GO:0045121lipid raft0.0149284042553036
GO:0043280positive regulation of caspase activity0.0155468175678466
GO:0051251positive regulation of lymphocyte activation0.0155468175678466
GO:0050863regulation of T cell activation0.0172038426275883
GO:0043281regulation of caspase activity0.0172038426275883
GO:0042493response to drug0.0172038426275883
GO:0030098lymphocyte differentiation0.0172038426275883
GO:0004722protein serine/threonine phosphatase activity0.0172038426275883
GO:0051480cytosolic calcium ion homeostasis0.0173694565847348
GO:0007204elevation of cytosolic calcium ion concentration0.0173694565847348
GO:0002253activation of immune response0.0173694565847348
GO:0008022protein C-terminus binding0.0173694565847348
GO:0051345positive regulation of hydrolase activity0.0173694565847348
GO:0051249regulation of lymphocyte activation0.0173694565847348
GO:0050865regulation of cell activation0.0178762817634228
GO:0019901protein kinase binding0.0180143473637898
GO:0050778positive regulation of immune response0.0180143473637898
GO:0002684positive regulation of immune system process0.0180143473637898
GO:0008632apoptotic program0.0180970681862679
GO:0002521leukocyte differentiation0.0180970681862679
GO:0050776regulation of immune response0.0186156389784673
GO:0042110T cell activation0.0186156389784673
GO:0019900kinase binding0.0186156389784673
GO:0002682regulation of immune system process0.0186156389784673
GO:0051240positive regulation of multicellular organismal process0.0191896170851969
GO:0006874cellular calcium ion homeostasis0.0204527827727977
GO:0055074calcium ion homeostasis0.0204527827727977
GO:0006875cellular metal ion homeostasis0.0209496874891393
GO:0055065metal ion homeostasis0.0209496874891393
GO:0019904protein domain specific binding0.0212493622807121
GO:0005813centrosome0.0212493622807121
GO:0005815microtubule organizing center0.0238175112989571
GO:0046649lymphocyte activation0.0247121557886227
GO:0030097hemopoiesis0.025265444591113
GO:0048534hemopoietic or lymphoid organ development0.0266282153137071
GO:0045321leukocyte activation0.0266282153137071
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0266282153137071
GO:0002520immune system development0.0266282153137071
GO:0055066di-, tri-valent inorganic cation homeostasis0.0266282153137071
GO:0030003cellular cation homeostasis0.0286789366588777
GO:0055080cation homeostasis0.0286978621515081
GO:0001775cell activation0.0288865464751273
GO:0006917induction of apoptosis0.0288865464751273
GO:0012502induction of programmed cell death0.0288865464751273
GO:0055082cellular chemical homeostasis0.0312844536056327
GO:0006873cellular ion homeostasis0.0312844536056327
GO:0043085positive regulation of catalytic activity0.0327530472383582
GO:0043065positive regulation of apoptosis0.0327530472383582
GO:0043068positive regulation of programmed cell death0.0327530472383582
GO:0050801ion homeostasis0.0334674497335767
GO:0051239regulation of multicellular organismal process0.0342871919098899
GO:0048878chemical homeostasis0.0361962874839148
GO:0019899enzyme binding0.0361962874839148
GO:0004713protein-tyrosine kinase activity0.0361962874839148
GO:0051336regulation of hydrolase activity0.0361962874839148
GO:0004721phosphoprotein phosphatase activity0.0364713582468456
GO:0019725cellular homeostasis0.0431538693944755
GO:0007265Ras protein signal transduction0.0491068728919253
GO:0016791phosphoric monoester hydrolase activity0.0492251115653811



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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C1218&oldid=1702357"