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Coexpression cluster:C1234


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Full id: C1234_cerebellum_parietal_pineal_duodenum_occipital_temporal_thalamus

Phase1 CAGE Peaks

  Short description
Hg19::chr18:32820990..32821031,+ p1@ZNF397
Hg19::chr19:12595586..12595637,- p2@ZNF709
Hg19::chr19:36870087..36870110,- p1@ZFP14
Hg19::chr19:37341752..37341816,+ p1@ZNF345
Hg19::chr19:44809143..44809187,- p1@ZNF235
Hg19::chr19:9434841..9434886,+ p1@ZNF559
Hg19::chr6:28234885..28234960,+ p1@ENST00000437778

Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset

2.75303467843507e-091.7426709514494e-065390{ASH2L,391} (Static Module):NA

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset

GO IDGO nameFDR corrected p-value
GO:0006355regulation of transcription, DNA-dependent1.28492457308728e-05
GO:0006351transcription, DNA-dependent1.28492457308728e-05
GO:0032774RNA biosynthetic process1.28492457308728e-05
GO:0003677DNA binding1.28492457308728e-05
GO:0045449regulation of transcription1.28492457308728e-05
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process1.28492457308728e-05
GO:0010468regulation of gene expression1.28492457308728e-05
GO:0031323regulation of cellular metabolic process1.33315034342445e-05
GO:0019222regulation of metabolic process1.40038407083747e-05
GO:0016070RNA metabolic process1.40038407083747e-05
GO:0008270zinc ion binding1.40038407083747e-05
GO:0046914transition metal ion binding3.45836035707735e-05
GO:0010467gene expression6.10102796453814e-05
GO:0050794regulation of cellular process7.45209661201949e-05
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process8.11418631990086e-05
GO:0050789regulation of biological process9.66298945126734e-05
GO:0003676nucleic acid binding0.000114910083150332
GO:0043169cation binding0.000122089782962347
GO:0065007biological regulation0.00014378886063675
GO:0046872metal ion binding0.000151411353560366
GO:0043167ion binding0.000160205453538815
GO:0043283biopolymer metabolic process0.000339098765258031
GO:0043231intracellular membrane-bound organelle0.000591020205429104
GO:0043227membrane-bound organelle0.000591020205429104
GO:0043229intracellular organelle0.00180918195850643
GO:0006359regulation of transcription from RNA polymerase III promoter0.0020747978199025
GO:0043170macromolecule metabolic process0.0020747978199025
GO:0003709RNA polymerase III transcription factor activity0.00313120512504248
GO:0044237cellular metabolic process0.00419777458772688
GO:0044238primary metabolic process0.00425923366319416
GO:0044424intracellular part0.00452565259442613
GO:0006383transcription from RNA polymerase III promoter0.0070506184225885
GO:0003704specific RNA polymerase II transcription factor activity0.00953998750196115
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0292411412813275
GO:0045892negative regulation of transcription, DNA-dependent0.0452875177448344

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset


Uber Anatomy
Ontology termp-valuen
adult organism9.94e-43115
central nervous system5.25e-2982
regional part of nervous system1.23e-2894
nervous system1.23e-2894
neural tube9.01e-2857
neural rod9.01e-2857
future spinal cord9.01e-2857
neural keel9.01e-2857
future brain4.84e-2469
regional part of brain1.17e-2359
anterior neural tube1.25e-2342
regional part of forebrain1.26e-2341
future forebrain1.26e-2341
gray matter1.93e-1934
brain grey matter1.93e-1934
regional part of telencephalon6.84e-1933
neural plate9.32e-1986
presumptive neural plate9.32e-1986
cerebral hemisphere3.33e-1832
presumptive ectoderm8.14e-15173
pre-chordal neural plate1.09e-1461
anterior region of body1.41e-14129
craniocervical region1.41e-14129
cerebral cortex4.18e-1425
regional part of cerebral cortex5.54e-1422
ectoderm-derived structure9.67e-14169
basal ganglion6.71e-079
nuclear complex of neuraxis6.71e-079
aggregate regional part of brain6.71e-079
collection of basal ganglia6.71e-079
cerebral subcortex6.71e-079
nucleus of brain7.75e-079
neural nucleus7.75e-079

Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs

Jaspar motifs

Novel motifs

JASPAR motifs



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.

link to data source

This analysis result is provided for C0 - C305 clusters.