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Coexpression cluster:C734

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Full id: C734_brain_occipital_parietal_middle_medial_frontal_hippocampus



Phase1 CAGE Peaks

Hg19::chr11:133110104..133110106,-p@chr11:133110104..133110106
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Hg19::chr11:35280774..35280791,-p18@SLC1A2
Hg19::chr11:35428629..35428633,-p@chr11:35428629..35428633
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Hg19::chr11:64490531..64490542,-p15@NRXN2
Hg19::chr12:6806552..6806592,-p@chr12:6806552..6806592
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Hg19::chr16:24228379..24228398,+p11@PRKCB
Hg19::chr17:36689327..36689331,-p@chr17:36689327..36689331
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Hg19::chr5:11385202..11385207,-p32@CTNND2
Hg19::chr5:11385208..11385211,-p31@CTNND2
Hg19::chr8:133460745..133460750,-p@chr8:133460745..133460750
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Hg19::chr9:138053475..138053498,-p@chr9:138053475..138053498
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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:0007268synaptic transmission0.012004234792766
GO:0019226transmission of nerve impulse0.012004234792766
GO:0007158neuron adhesion0.012004234792766
GO:0005313L-glutamate transmembrane transporter activity0.012004234792766
GO:0015172acidic amino acid transmembrane transporter activity0.012004234792766
GO:0005246calcium channel regulator activity0.012004234792766
GO:0007267cell-cell signaling0.012004234792766
GO:0015813L-glutamate transport0.012004234792766
GO:0015800acidic amino acid transport0.012004234792766
GO:0017153sodium:dicarboxylate symporter activity0.012004234792766
GO:0032501multicellular organismal process0.012004234792766
GO:0005310dicarboxylic acid transmembrane transporter activity0.012004234792766
GO:0006835dicarboxylic acid transport0.012004234792766
GO:0007416synaptogenesis0.015263430192972
GO:0022610biological adhesion0.015263430192972
GO:0007155cell adhesion0.015263430192972
GO:0015179L-amino acid transmembrane transporter activity0.0166790804028058
GO:0016247channel regulator activity0.0166790804028058
GO:0005343organic acid:sodium symporter activity0.0166790804028058
GO:0015296anion:cation symporter activity0.0166790804028058
GO:0050808synapse organization and biogenesis0.0166790804028058
GO:0007269neurotransmitter secretion0.0166790804028058
GO:0050877neurological system process0.0184434811931709
GO:0007154cell communication0.0189883449215195
GO:0045055regulated secretory pathway0.0194403635047792
GO:0015171amino acid transmembrane transporter activity0.0221233606276199
GO:0003008system process0.0221233606276199
GO:0006865amino acid transport0.0221233606276199
GO:0003001generation of a signal involved in cell-cell signaling0.0221233606276199
GO:0001505regulation of neurotransmitter levels0.0238244046128343
GO:0015837amine transport0.0240492340692788
GO:0043062extracellular structure organization and biogenesis0.0240492340692788
GO:0015370solute:sodium symporter activity0.0244280890003623
GO:0046943carboxylic acid transmembrane transporter activity0.0245026736589769
GO:0046942carboxylic acid transport0.0245026736589769
GO:0015849organic acid transport0.0245026736589769
GO:0005342organic acid transmembrane transporter activity0.0245026736589769
GO:0015294solute:cation symporter activity0.0274605540620924
GO:0044425membrane part0.0313573386065829
GO:0007275multicellular organismal development0.0340974263283226
GO:0008509anion transmembrane transporter activity0.0465301057857495



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
central nervous system7.67e-4682
neural tube1.84e-4557
neural rod1.84e-4557
future spinal cord1.84e-4557
neural keel1.84e-4557
regional part of nervous system4.60e-4494
nervous system4.60e-4494
regional part of brain1.18e-3959
brain1.05e-3769
future brain1.05e-3769
regional part of forebrain4.21e-3741
forebrain4.21e-3741
future forebrain4.21e-3741
neurectoderm7.37e-3690
anterior neural tube9.39e-3642
neural plate1.71e-3486
presumptive neural plate1.71e-3486
telencephalon9.17e-3234
gray matter1.38e-3134
brain grey matter1.38e-3134
regional part of telencephalon8.44e-3133
adult organism8.74e-31115
cerebral hemisphere5.25e-3032
pre-chordal neural plate1.40e-2461
ectoderm1.65e-24173
presumptive ectoderm1.65e-24173
cerebral cortex1.35e-2325
pallium1.35e-2325
ectoderm-derived structure3.12e-23169
regional part of cerebral cortex2.45e-2222
neocortex1.95e-2020
anterior region of body1.14e-18129
craniocervical region1.14e-18129
head5.32e-18123
tube4.29e-11194
posterior neural tube1.16e-1015
chordal neural plate1.16e-1015
basal ganglion1.77e-099
nuclear complex of neuraxis1.77e-099
aggregate regional part of brain1.77e-099
collection of basal ganglia1.77e-099
cerebral subcortex1.77e-099
nucleus of brain2.24e-099
neural nucleus2.24e-099
segmental subdivision of nervous system4.38e-0913
temporal lobe1.38e-087
segmental subdivision of hindbrain2.96e-0812
hindbrain2.96e-0812
presumptive hindbrain2.96e-0812
organ part3.95e-08219
epithelium5.36e-08309
cell layer6.80e-08312
anatomical cluster9.45e-08286
telencephalic nucleus9.97e-087
anatomical conduit2.40e-07241
gyrus4.22e-076


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.