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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
neural tube1.19e-10456
neural rod1.19e-10456
future spinal cord1.19e-10456
neural keel1.19e-10456
regional part of nervous system4.03e-9953
regional part of brain4.03e-9953
regional part of forebrain1.02e-8941
forebrain1.02e-8941
anterior neural tube1.02e-8941
future forebrain1.02e-8941
telencephalon6.55e-8834
brain grey matter1.67e-8734
gray matter1.67e-8734
central nervous system5.42e-8681
brain5.66e-8468
future brain5.66e-8468
cerebral hemisphere2.80e-8032
regional part of telencephalon8.63e-8032
nervous system8.99e-7789
neural plate3.28e-7382
presumptive neural plate3.28e-7382
neurectoderm1.79e-6986
regional part of cerebral cortex2.78e-6722
pre-chordal neural plate1.50e-6261
cerebral cortex5.58e-5925
pallium5.58e-5925
neocortex8.87e-5920
ecto-epithelium3.58e-56104
adult organism3.56e-51114
structure with developmental contribution from neural crest9.12e-48132
ectoderm-derived structure1.12e-38171
ectoderm1.12e-38171
presumptive ectoderm1.12e-38171
neural nucleus9.59e-309
nucleus of brain9.59e-309
organ system subdivision1.65e-29223
tube3.25e-25192
basal ganglion2.92e-239
nuclear complex of neuraxis2.92e-239
aggregate regional part of brain2.92e-239
collection of basal ganglia2.92e-239
cerebral subcortex2.92e-239
parietal lobe2.18e-225
telencephalic nucleus4.48e-227
gyrus7.07e-196
anatomical conduit1.46e-18240
brainstem2.05e-176
posterior neural tube9.26e-1715
chordal neural plate9.26e-1715
temporal lobe4.47e-166
anatomical cluster2.76e-15373
limbic system3.29e-155
occipital lobe4.39e-155
organ part1.05e-14218
epithelium8.94e-14306
cell layer1.46e-13309
pons2.38e-133
segmental subdivision of hindbrain4.87e-1212
hindbrain4.87e-1212
presumptive hindbrain4.87e-1212
multi-tissue structure1.77e-11342
segmental subdivision of nervous system4.54e-1113
corpus striatum8.10e-114
striatum8.10e-114
ventral part of telencephalon8.10e-114
future corpus striatum8.10e-114
Ammon's horn2.02e-102
lobe parts of cerebral cortex2.02e-102
hippocampal formation2.02e-102
limbic lobe2.02e-102
middle temporal gyrus4.39e-102
globus pallidus1.34e-092
pallidum1.34e-092
locus ceruleus1.66e-092
brainstem nucleus1.66e-092
hindbrain nucleus1.66e-092
meninx2.80e-092
membrane organ2.80e-092
meningeal cluster2.80e-092
organ2.77e-08503
regional part of metencephalon1.22e-079
metencephalon1.22e-079
future metencephalon1.22e-079
germ layer3.39e-07560
germ layer / neural crest3.39e-07560
embryonic tissue3.39e-07560
presumptive structure3.39e-07560
germ layer / neural crest derived structure3.39e-07560
epiblast (generic)3.39e-07560
embryonic structure4.43e-07564
frontal cortex4.46e-073
caudate-putamen6.01e-073
dorsal striatum6.01e-073


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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