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Coexpression cluster:C2650

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Full id: C2650_Neural_hippocampus_amygdala_parietal_middle_medial_caudate



Phase1 CAGE Peaks

Hg19::chr22:50523729..50523747,-p3@MLC1
Hg19::chr4:114214125..114214151,+p11@ANK2
Hg19::chr5:16741975..16741994,-p8@MYO10
Hg19::chr5:36606700..36606729,+p1@SLC1A3


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:0015629actin cytoskeleton0.0178981509968156
GO:0005313L-glutamate transmembrane transporter activity0.0178981509968156
GO:0001504neurotransmitter uptake0.0178981509968156
GO:0000299integral to membrane of membrane fraction0.0178981509968156
GO:0015172acidic amino acid transmembrane transporter activity0.0178981509968156
GO:0015813L-glutamate transport0.0178981509968156
GO:0015800acidic amino acid transport0.0178981509968156
GO:0017153sodium:dicarboxylate symporter activity0.0178981509968156
GO:0005310dicarboxylic acid transmembrane transporter activity0.0178981509968156
GO:0006835dicarboxylic acid transport0.0178981509968156
GO:0005624membrane fraction0.0178981509968156
GO:0043232intracellular non-membrane-bound organelle0.0178981509968156
GO:0043228non-membrane-bound organelle0.0178981509968156
GO:0015179L-amino acid transmembrane transporter activity0.0263385807155217
GO:0000267cell fraction0.0264272426077618
GO:0005343organic acid:sodium symporter activity0.0264272426077618
GO:0015296anion:cation symporter activity0.0264272426077618
GO:0015171amino acid transmembrane transporter activity0.0366909263885831
GO:0006865amino acid transport0.0366909263885831
GO:0015075ion transmembrane transporter activity0.0366909263885831
GO:0006836neurotransmitter transport0.0366909263885831
GO:0001505regulation of neurotransmitter levels0.0366909263885831
GO:0015837amine transport0.0366909263885831
GO:0005856cytoskeleton0.0366909263885831
GO:0005200structural constituent of cytoskeleton0.0366909263885831
GO:0015370solute:sodium symporter activity0.0366909263885831
GO:0022891substrate-specific transmembrane transporter activity0.0366909263885831
GO:0046943carboxylic acid transmembrane transporter activity0.0366909263885831
GO:0046942carboxylic acid transport0.0366909263885831
GO:0015849organic acid transport0.0366909263885831
GO:0005342organic acid transmembrane transporter activity0.0366909263885831
GO:0016459myosin complex0.0384030294254836
GO:0022857transmembrane transporter activity0.0384966829879713
GO:0015294solute:cation symporter activity0.0384966829879713
GO:0022892substrate-specific transporter activity0.0418601036548849
GO:0007154cell communication0.0418601036548849



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 system3.12e-3882
regional part of nervous system5.19e-3694
nervous system5.19e-3694
neural tube1.09e-3357
neural rod1.09e-3357
future spinal cord1.09e-3357
neural keel1.09e-3357
regional part of brain1.84e-3259
brain2.34e-3169
future brain2.34e-3169
ectoderm-derived structure3.73e-27169
ectoderm6.13e-27173
presumptive ectoderm6.13e-27173
anterior neural tube1.35e-2542
regional part of forebrain3.35e-2541
forebrain3.35e-2541
future forebrain3.35e-2541
adult organism1.34e-24115
neural plate2.00e-2486
presumptive neural plate2.00e-2486
neurectoderm8.20e-2490
head1.29e-23123
anterior region of body6.58e-23129
craniocervical region6.58e-23129
telencephalon1.42e-2134
gray matter1.44e-2134
brain grey matter1.44e-2134
regional part of telencephalon5.63e-2133
cerebral hemisphere2.30e-2032
organ3.80e-18511
pre-chordal neural plate2.00e-1761
multi-cellular organism8.15e-17659
cerebral cortex6.53e-1625
pallium6.53e-1625
anatomical system6.88e-16625
anatomical group8.04e-16626
embryo1.64e-15612
regional part of cerebral cortex3.25e-1422
embryonic structure3.74e-14605
developing anatomical structure3.74e-14605
germ layer6.51e-14604
embryonic tissue6.51e-14604
presumptive structure6.51e-14604
epiblast (generic)6.51e-14604
neocortex6.75e-1320
posterior neural tube3.85e-0915
chordal neural plate3.85e-0915
segmental subdivision of nervous system7.38e-0813
organ part8.05e-08219
tissue1.62e-07787
segmental subdivision of hindbrain2.14e-0712
hindbrain2.14e-0712
presumptive hindbrain2.14e-0712
basal ganglion2.82e-079
nuclear complex of neuraxis2.82e-079
aggregate regional part of brain2.82e-079
collection of basal ganglia2.82e-079
cerebral subcortex2.82e-079
nucleus of brain4.00e-079
neural nucleus4.00e-079
organism subdivision9.57e-07365


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.