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Coexpression cluster:C3149

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Full id: C3149_occipital_diencephalon_olfactory_cerebral_amygdala_caudate_hippocampus



Phase1 CAGE Peaks

Hg19::chr11:35280532..35280559,-p11@SLC1A2
Hg19::chr12:57978901..57978913,+p3@uc001sos.2
Hg19::chr3:58551927..58551941,-p@chr3:58551927..58551941
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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:0005313L-glutamate transmembrane transporter activity0.00321693495483676
GO:0015172acidic amino acid transmembrane transporter activity0.00321693495483676
GO:0015813L-glutamate transport0.00321693495483676
GO:0015800acidic amino acid transport0.00321693495483676
GO:0017153sodium:dicarboxylate symporter activity0.00321693495483676
GO:0005310dicarboxylic acid transmembrane transporter activity0.00321693495483676
GO:0006835dicarboxylic acid transport0.00321693495483676
GO:0015179L-amino acid transmembrane transporter activity0.00516601907453197
GO:0005343organic acid:sodium symporter activity0.00516601907453197
GO:0015296anion:cation symporter activity0.00516601907453197
GO:0015171amino acid transmembrane transporter activity0.00728541151536559
GO:0006865amino acid transport0.00728541151536559
GO:0015837amine transport0.00728541151536559
GO:0015370solute:sodium symporter activity0.00728541151536559
GO:0046943carboxylic acid transmembrane transporter activity0.00728541151536559
GO:0046942carboxylic acid transport0.00728541151536559
GO:0005342organic acid transmembrane transporter activity0.00728541151536559
GO:0015849organic acid transport0.00728541151536559
GO:0015294solute:cation symporter activity0.0079477216531261
GO:0008509anion transmembrane transporter activity0.0138422818791946
GO:0015293symporter activity0.0152646717464803
GO:0007268synaptic transmission0.0174609036318679
GO:0019226transmission of nerve impulse0.019005421344432
GO:0015291secondary active transmembrane transporter activity0.0198693041328153
GO:0007267cell-cell signaling0.0335079869696613
GO:0022804active transmembrane transporter activity0.0335079869696613
GO:0005624membrane fraction0.0335079869696613
GO:0008324cation transmembrane transporter activity0.0412002582248261
GO:0000267cell fraction0.0412002582248261



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
adult organism2.24e-76115
neural tube2.20e-6457
neural rod2.20e-6457
future spinal cord2.20e-6457
neural keel2.20e-6457
central nervous system5.95e-6082
regional part of nervous system4.50e-5694
nervous system4.50e-5694
regional part of brain1.93e-5359
regional part of forebrain1.36e-5141
forebrain1.36e-5141
future forebrain1.36e-5141
brain9.84e-5169
future brain9.84e-5169
neural plate2.48e-5086
presumptive neural plate2.48e-5086
anterior neural tube4.93e-5042
neurectoderm7.41e-4990
gray matter4.16e-4334
brain grey matter4.16e-4334
telencephalon5.50e-4334
regional part of telencephalon1.28e-4133
cerebral hemisphere1.94e-4032
pre-chordal neural plate2.92e-3361
cerebral cortex1.59e-3025
pallium1.59e-3025
regional part of cerebral cortex2.58e-3022
ectoderm-derived structure1.67e-29169
ectoderm2.85e-29173
presumptive ectoderm2.85e-29173
neocortex2.35e-2720
head2.93e-27123
anterior region of body4.22e-27129
craniocervical region4.22e-27129
tube2.55e-20194
anatomical conduit9.29e-20241
anatomical cluster3.67e-17286
posterior neural tube6.40e-1515
chordal neural plate6.40e-1515
basal ganglion3.05e-149
nuclear complex of neuraxis3.05e-149
aggregate regional part of brain3.05e-149
collection of basal ganglia3.05e-149
cerebral subcortex3.05e-149
nucleus of brain6.16e-149
neural nucleus6.16e-149
segmental subdivision of nervous system2.70e-1213
telencephalic nucleus2.87e-117
epithelium4.40e-11309
segmental subdivision of hindbrain5.29e-1112
hindbrain5.29e-1112
presumptive hindbrain5.29e-1112
cell layer9.12e-11312
organ part5.32e-10219
gyrus5.49e-106
diencephalon8.14e-107
future diencephalon8.14e-107
temporal lobe8.26e-107
multi-tissue structure2.85e-09347
brainstem4.89e-098
limbic system7.66e-095
embryo9.14e-09612
occipital lobe1.35e-085
parietal lobe3.19e-085
organ5.40e-08511
embryonic structure5.41e-08605
developing anatomical structure5.41e-08605
multi-cellular organism6.73e-08659
germ layer1.25e-07604
embryonic tissue1.25e-07604
presumptive structure1.25e-07604
epiblast (generic)1.25e-07604
organism subdivision1.35e-07365
regional part of metencephalon2.28e-079
metencephalon2.28e-079
future metencephalon2.28e-079
corpus striatum3.33e-074
striatum3.33e-074
ventral part of telencephalon3.33e-074
future corpus striatum3.33e-074
anatomical system8.27e-07625
anatomical group9.52e-07626


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.