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Coexpression cluster:C982

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Full id: C982_pineal_substantia_thalamus_globus_spinal_corpus_medulla



Phase1 CAGE Peaks

Hg19::chr10:75118611..75118626,-p2@TTC18
Hg19::chr15:48010462..48010480,+p8@SEMA6D
Hg19::chr17:20979154..20979174,+p2@ENST00000456235
Hg19::chr17:73472575..73472603,+p3@KIAA0195
Hg19::chr19:35417728..35417761,-p1@BC047554
Hg19::chr3:118753758..118753785,-p4@IGSF11
Hg19::chr4:87855851..87855903,-p1@C4orf36
Hg19::chr7:29519662..29519677,+p4@CHN2


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


No GOStat results

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 organism2.77e-46115
neural tube1.41e-3357
neural rod1.41e-3357
future spinal cord1.41e-3357
neural keel1.41e-3357
central nervous system3.29e-3382
regional part of nervous system2.88e-3294
nervous system2.88e-3294
brain6.91e-2969
future brain6.91e-2969
regional part of brain5.52e-2859
neural plate5.43e-2786
presumptive neural plate5.43e-2786
anterior neural tube7.29e-2642
regional part of forebrain1.61e-2541
forebrain1.61e-2541
future forebrain1.61e-2541
neurectoderm3.10e-2590
ectoderm-derived structure4.16e-22169
ectoderm3.19e-21173
presumptive ectoderm3.19e-21173
telencephalon5.94e-2134
gray matter6.49e-2134
brain grey matter6.49e-2134
anterior region of body1.95e-20129
craniocervical region1.95e-20129
regional part of telencephalon2.49e-2033
head4.32e-20123
cerebral hemisphere1.41e-1932
pre-chordal neural plate2.43e-1961
cerebral cortex4.91e-1525
pallium4.91e-1525
regional part of cerebral cortex1.88e-1422
neocortex3.20e-1320
organism subdivision3.59e-10365
posterior neural tube8.63e-0915
chordal neural plate8.63e-0915
anatomical conduit1.70e-08241
multi-tissue structure3.65e-08347
tube7.23e-08194
segmental subdivision of nervous system1.52e-0713
nucleus of brain2.18e-079
neural nucleus2.18e-079
basal ganglion2.45e-079
nuclear complex of neuraxis2.45e-079
aggregate regional part of brain2.45e-079
collection of basal ganglia2.45e-079
cerebral subcortex2.45e-079
organ2.57e-07511
organ part2.91e-07219
epithelium4.77e-07309
segmental subdivision of hindbrain5.93e-0712
hindbrain5.93e-0712
presumptive hindbrain5.93e-0712
anatomical cluster7.59e-07286
cell layer7.99e-07312


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.