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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C701_Mast_thalamus_globus_middle_substantia_corpus_medial
|full_id=C701_Mast_thalamus_globus_middle_substantia_corpus_medial
|gostat_on_coexpression_clusters=GO:0031116!positive regulation of microtubule polymerization!0.0186801036130093!83992$GO:0050998!nitric-oxide synthase binding!0.0186801036130093!83992$GO:0031112!positive regulation of microtubule polymerization or depolymerization!0.0186801036130093!83992$GO:0030321!transepithelial chloride transport!0.0186801036130093!83992$GO:0031113!regulation of microtubule polymerization!0.0186801036130093!83992$GO:0046785!microtubule polymerization!0.0186801036130093!83992$GO:0032502!developmental process!0.0186801036130093!6733;825;83992$GO:0001937!negative regulation of endothelial cell proliferation!0.0186801036130093!83992$GO:0051130!positive regulation of cellular component organization and biogenesis!0.0186801036130093!83992$GO:0045178!basal part of cell!0.0186801036130093!83992$GO:0009925!basal plasma membrane!0.0186801036130093!83992$GO:0001936!regulation of endothelial cell proliferation!0.0186801036130093!83992$GO:0019905!syntaxin binding!0.0186801036130093!83992$GO:0042311!vasodilation!0.0186801036130093!83992$GO:0001935!endothelial cell proliferation!0.0186801036130093!83992$GO:0030317!sperm motility!0.0186801036130093!83992$GO:0000149!SNARE binding!0.0186801036130093!83992$GO:0007595!lactation!0.0186801036130093!83992$GO:0043434!response to peptide hormone stimulus!0.0186801036130093!83992$GO:0043627!response to estrogen stimulus!0.0186801036130093!83992$GO:0016599!caveolar membrane!0.0186801036130093!83992$GO:0005901!caveola!0.0186801036130093!83992$GO:0031110!regulation of microtubule polymerization or depolymerization!0.0186801036130093!83992$GO:0004198!calcium-dependent cysteine-type endopeptidase activity!0.0186801036130093!825$GO:0000245!spliceosome assembly!0.0186801036130093!6733$GO:0031109!microtubule polymerization or depolymerization!0.0186801036130093!83992$GO:0019861!flagellum!0.0186801036130093!83992$GO:0005925!focal adhesion!0.0186801036130093!83992$GO:0001764!neuron migration!0.0186801036130093!83992$GO:0048545!response to steroid hormone stimulus!0.0186801036130093!83992$GO:0048513!organ development!0.0186801036130093!825;83992$GO:0005924!cell-substrate adherens junction!0.0186801036130093!83992$GO:0004672!protein kinase activity!0.0186801036130093!6733;83992$GO:0006468!protein amino acid phosphorylation!0.0186801036130093!6733;83992$GO:0030055!cell-matrix junction!0.0186801036130093!83992$GO:0030324!lung development!0.0186801036130093!83992$GO:0035150!regulation of tube size!0.0186801036130093!83992$GO:0050880!regulation of blood vessel size!0.0186801036130093!83992$GO:0030323!respiratory tube development!0.0186801036130093!83992$GO:0003018!vascular process in circulatory system!0.0186801036130093!83992$GO:0046777!protein amino acid autophosphorylation!0.0186801036130093!83992$GO:0045121!lipid raft!0.0186801036130093!83992$GO:0016540!protein autoprocessing!0.0186801036130093!83992$GO:0044267!cellular protein metabolic process!0.019975165662148!6733;825;83992$GO:0044260!cellular macromolecule metabolic process!0.0202967030143573!6733;825;83992$GO:0005912!adherens junction!0.02039706182063!83992$GO:0016310!phosphorylation!0.02039706182063!6733;83992$GO:0016773!phosphotransferase activity, alcohol group as acceptor!0.02039706182063!6733;83992$GO:0019538!protein metabolic process!0.0207095077449335!6733;825;83992$GO:0048609!reproductive process in a multicellular organism!0.0208765004351701!83992$GO:0032504!multicellular organism reproduction!0.0208765004351701!83992$GO:0042493!response to drug!0.0211450960231025!83992$GO:0016324!apical plasma membrane!0.0218118710033986!83992$GO:0000398!nuclear mRNA splicing, via spliceosome!0.0218118710033986!6733$GO:0000375!RNA splicing, via transesterification reactions!0.0218118710033986!6733$GO:0000377!RNA splicing, via transesterification reactions with bulged adenosine as nucleophile!0.0218118710033986!6733$GO:0048731!system development!0.0225153910667357!825;83992$GO:0009725!response to hormone stimulus!0.0228608169243905!83992$GO:0016301!kinase activity!0.0233437865526716!6733;83992$GO:0006793!phosphorus metabolic process!0.0233437865526716!6733;83992$GO:0006796!phosphate metabolic process!0.0233437865526716!6733;83992$GO:0035239!tube morphogenesis!0.0233437865526716!83992$GO:0016323!basolateral plasma membrane!0.0233437865526716!83992$GO:0045177!apical part of cell!0.0233437865526716!83992$GO:0006821!chloride transport!0.0233437865526716!83992$GO:0048869!cellular developmental process!0.0242610472914439!6733;83992$GO:0030154!cell differentiation!0.0242610472914439!6733;83992$GO:0051258!protein polymerization!0.0245550436696403!83992$GO:0019900!kinase binding!0.0245550436696403!83992$GO:0016485!protein processing!0.0245550436696403!83992$GO:0051128!regulation of cellular component organization and biogenesis!0.0245550436696403!83992$GO:0000226!microtubule cytoskeleton organization and biogenesis!0.0246968259458888!83992$GO:0030659!cytoplasmic vesicle membrane!0.0250727235879941!83992$GO:0044433!cytoplasmic vesicle part!0.0252035395469867!83992$GO:0016772!transferase activity, transferring phosphorus-containing groups!0.0253631517374223!6733;83992$GO:0012506!vesicle membrane!0.0258025127592807!83992$GO:0048856!anatomical structure development!0.0258025127592807!825;83992$GO:0035295!tube development!0.0261380241335892!83992$GO:0005737!cytoplasm!0.0267665293047419!6733;825;83992$GO:0007420!brain development!0.0297900844702313!83992$GO:0022618!protein-RNA complex assembly!0.0297900844702313!6733$GO:0043687!post-translational protein modification!0.0297900844702313!6733;83992$GO:0004197!cysteine-type endopeptidase activity!0.0297900844702313!825$GO:0007275!multicellular organismal development!0.0309125018910617!825;83992$GO:0008015!blood circulation!0.0323781891794638!83992$GO:0003013!circulatory system process!0.0323781891794638!83992$GO:0007517!muscle development!0.0343943065693929!825$GO:0006464!protein modification process!0.0404822434922459!6733;83992$GO:0043412!biopolymer modification!0.0429476695999892!6733;83992$GO:0008285!negative regulation of cell proliferation!0.0429476695999892!83992$GO:0008380!RNA splicing!0.0429476695999892!6733$GO:0016477!cell migration!0.0434120560477655!83992$GO:0005625!soluble fraction!0.0434120560477655!83992$GO:0007417!central nervous system development!0.0434120560477655!83992$GO:0048699!generation of neurons!0.0442254649823763!83992$GO:0022613!ribonucleoprotein complex biogenesis and assembly!0.0444829172976253!6733$GO:0015698!inorganic anion transport!0.0463873480793026!83992$GO:0022008!neurogenesis!0.0463873480793026!83992$GO:0006397!mRNA processing!0.0478311459301994!6733
|id=C701
|id=C701
}}
}}

Revision as of 17:41, 18 May 2012


Full id: C701_Mast_thalamus_globus_middle_substantia_corpus_medial



Phase1 CAGE Peaks

Hg19::chr15:42696918..42696927,+p9@CAPN3
Hg19::chr6:134638696..134638707,-p25@SGK1
Hg19::chr6:134639042..134639056,-p14@SGK1
Hg19::chr6:134639058..134639085,-p10@SGK1
Hg19::chr6:134639090..134639119,-p6@SGK1
Hg19::chr6:134639126..134639137,-p32@SGK1
Hg19::chr6:134639140..134639171,-p7@SGK1
Hg19::chr6:134639180..134639220,-p4@SGK1
Hg19::chr6:134639235..134639255,-p8@SGK1
Hg19::chr7:104909435..104909535,-p2@SRPK2
Hg19::chr7:117513474..117513500,-p1@CTTNBP2
Hg19::chr7:117513540..117513587,-p2@CTTNBP2


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:0031116positive regulation of microtubule polymerization0.0186801036130093
GO:0050998nitric-oxide synthase binding0.0186801036130093
GO:0031112positive regulation of microtubule polymerization or depolymerization0.0186801036130093
GO:0030321transepithelial chloride transport0.0186801036130093
GO:0031113regulation of microtubule polymerization0.0186801036130093
GO:0046785microtubule polymerization0.0186801036130093
GO:0032502developmental process0.0186801036130093
GO:0001937negative regulation of endothelial cell proliferation0.0186801036130093
GO:0051130positive regulation of cellular component organization and biogenesis0.0186801036130093
GO:0045178basal part of cell0.0186801036130093
GO:0009925basal plasma membrane0.0186801036130093
GO:0001936regulation of endothelial cell proliferation0.0186801036130093
GO:0019905syntaxin binding0.0186801036130093
GO:0042311vasodilation0.0186801036130093
GO:0001935endothelial cell proliferation0.0186801036130093
GO:0030317sperm motility0.0186801036130093
GO:0000149SNARE binding0.0186801036130093
GO:0007595lactation0.0186801036130093
GO:0043434response to peptide hormone stimulus0.0186801036130093
GO:0043627response to estrogen stimulus0.0186801036130093
GO:0016599caveolar membrane0.0186801036130093
GO:0005901caveola0.0186801036130093
GO:0031110regulation of microtubule polymerization or depolymerization0.0186801036130093
GO:0004198calcium-dependent cysteine-type endopeptidase activity0.0186801036130093
GO:0000245spliceosome assembly0.0186801036130093
GO:0031109microtubule polymerization or depolymerization0.0186801036130093
GO:0019861flagellum0.0186801036130093
GO:0005925focal adhesion0.0186801036130093
GO:0001764neuron migration0.0186801036130093
GO:0048545response to steroid hormone stimulus0.0186801036130093
GO:0048513organ development0.0186801036130093
GO:0005924cell-substrate adherens junction0.0186801036130093
GO:0004672protein kinase activity0.0186801036130093
GO:0006468protein amino acid phosphorylation0.0186801036130093
GO:0030055cell-matrix junction0.0186801036130093
GO:0030324lung development0.0186801036130093
GO:0035150regulation of tube size0.0186801036130093
GO:0050880regulation of blood vessel size0.0186801036130093
GO:0030323respiratory tube development0.0186801036130093
GO:0003018vascular process in circulatory system0.0186801036130093
GO:0046777protein amino acid autophosphorylation0.0186801036130093
GO:0045121lipid raft0.0186801036130093
GO:0016540protein autoprocessing0.0186801036130093
GO:0044267cellular protein metabolic process0.019975165662148
GO:0044260cellular macromolecule metabolic process0.0202967030143573
GO:0005912adherens junction0.02039706182063
GO:0016310phosphorylation0.02039706182063
GO:0016773phosphotransferase activity, alcohol group as acceptor0.02039706182063
GO:0019538protein metabolic process0.0207095077449335
GO:0048609reproductive process in a multicellular organism0.0208765004351701
GO:0032504multicellular organism reproduction0.0208765004351701
GO:0042493response to drug0.0211450960231025
GO:0016324apical plasma membrane0.0218118710033986
GO:0000398nuclear mRNA splicing, via spliceosome0.0218118710033986
GO:0000375RNA splicing, via transesterification reactions0.0218118710033986
GO:0000377RNA splicing, via transesterification reactions with bulged adenosine as nucleophile0.0218118710033986
GO:0048731system development0.0225153910667357
GO:0009725response to hormone stimulus0.0228608169243905
GO:0016301kinase activity0.0233437865526716
GO:0006793phosphorus metabolic process0.0233437865526716
GO:0006796phosphate metabolic process0.0233437865526716
GO:0035239tube morphogenesis0.0233437865526716
GO:0016323basolateral plasma membrane0.0233437865526716
GO:0045177apical part of cell0.0233437865526716
GO:0006821chloride transport0.0233437865526716
GO:0048869cellular developmental process0.0242610472914439
GO:0030154cell differentiation0.0242610472914439
GO:0051258protein polymerization0.0245550436696403
GO:0019900kinase binding0.0245550436696403
GO:0016485protein processing0.0245550436696403
GO:0051128regulation of cellular component organization and biogenesis0.0245550436696403
GO:0000226microtubule cytoskeleton organization and biogenesis0.0246968259458888
GO:0030659cytoplasmic vesicle membrane0.0250727235879941
GO:0044433cytoplasmic vesicle part0.0252035395469867
GO:0016772transferase activity, transferring phosphorus-containing groups0.0253631517374223
GO:0012506vesicle membrane0.0258025127592807
GO:0048856anatomical structure development0.0258025127592807
GO:0035295tube development0.0261380241335892
GO:0005737cytoplasm0.0267665293047419
GO:0007420brain development0.0297900844702313
GO:0022618protein-RNA complex assembly0.0297900844702313
GO:0043687post-translational protein modification0.0297900844702313
GO:0004197cysteine-type endopeptidase activity0.0297900844702313
GO:0007275multicellular organismal development0.0309125018910617
GO:0008015blood circulation0.0323781891794638
GO:0003013circulatory system process0.0323781891794638
GO:0007517muscle development0.0343943065693929
GO:0006464protein modification process0.0404822434922459
GO:0043412biopolymer modification0.0429476695999892
GO:0008285negative regulation of cell proliferation0.0429476695999892
GO:0008380RNA splicing0.0429476695999892
GO:0016477cell migration0.0434120560477655
GO:0005625soluble fraction0.0434120560477655
GO:0007417central nervous system development0.0434120560477655
GO:0048699generation of neurons0.0442254649823763
GO:0022613ribonucleoprotein complex biogenesis and assembly0.0444829172976253
GO:0015698inorganic anion transport0.0463873480793026
GO:0022008neurogenesis0.0463873480793026
GO:0006397mRNA processing0.0478311459301994



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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