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Difference between revisions of "Coexpression cluster:C3740"

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|gostat_on_coexpression_clusters=GO:0043209!myelin sheath!0.00158954433062522!4155$GO:0019911!structural constituent of myelin sheath!0.00437124690921936!4155$GO:0008366!axon ensheathment!0.00635817732250088!4155$GO:0007272!ensheathment of neurons!0.00635817732250088!4155$GO:0001508!regulation of action potential!0.00635817732250088!4155$GO:0007417!central nervous system development!0.0311285764747439!4155$GO:0007268!synaptic transmission!0.0327843518191452!4155$GO:0019226!transmission of nerve impulse!0.0327843518191452!4155
 
|gostat_on_coexpression_clusters=GO:0043209!myelin sheath!0.00158954433062522!4155$GO:0019911!structural constituent of myelin sheath!0.00437124690921936!4155$GO:0008366!axon ensheathment!0.00635817732250088!4155$GO:0007272!ensheathment of neurons!0.00635817732250088!4155$GO:0001508!regulation of action potential!0.00635817732250088!4155$GO:0007417!central nervous system development!0.0311285764747439!4155$GO:0007268!synaptic transmission!0.0327843518191452!4155$GO:0019226!transmission of nerve impulse!0.0327843518191452!4155
 
|id=C3740
 
|id=C3740
 +
|ontology_enrichment_celltype=CL:0000037!2.21e-68!172;CL:0000566!2.21e-68!172;CL:0000988!1.22e-64!182;CL:0002032!1.50e-64!165;CL:0000837!1.50e-64!165;CL:0000738!1.10e-59!140;CL:0002031!5.17e-50!124;CL:0002087!4.80e-49!119;CL:0000763!2.19e-44!112;CL:0000049!2.19e-44!112;CL:0000766!2.22e-36!76;CL:0000557!4.00e-33!71;CL:0000839!5.47e-31!70;CL:0002009!7.20e-31!65;CL:0002194!1.41e-29!63;CL:0000576!1.41e-29!63;CL:0000040!1.41e-29!63;CL:0000559!1.41e-29!63;CL:0002057!1.74e-25!42;CL:0000860!1.42e-24!45;CL:0000542!7.17e-17!53;CL:0000051!7.17e-17!53;CL:0000838!1.33e-16!52;CL:0000084!4.60e-09!25;CL:0000827!4.60e-09!25;CL:0000791!1.65e-07!18;CL:0000789!1.65e-07!18;CL:0002420!1.65e-07!18;CL:0002419!1.65e-07!18;CL:0000790!1.65e-07!18;CL:0000945!1.84e-07!24;CL:0000826!1.84e-07!24
 +
|ontology_enrichment_disease=DOID:2531!2.42e-10!51;DOID:0060083!2.42e-10!51;DOID:1240!1.05e-09!39;DOID:8692!1.26e-07!31
 +
|ontology_enrichment_uberon=UBERON:0002390!9.27e-35!102;UBERON:0003061!9.27e-35!102;UBERON:0002193!6.56e-31!112;UBERON:0002371!3.51e-25!80;UBERON:0001474!2.89e-23!86;UBERON:0002405!4.26e-20!115;UBERON:0004765!5.36e-15!101;UBERON:0001434!5.36e-15!101;UBERON:0000178!4.43e-08!15;UBERON:0000179!4.43e-08!15;UBERON:0000463!4.43e-08!15
 
}}
 
}}

Revision as of 05:40, 21 May 2012


Full id: C3740_granulocyte_Neutrophils_Eosinophils_immature_acute_CD14_blood



Phase1 CAGE Peaks

  Short description
Hg19::chr18:74844713..74844724,- p5@MBP
Hg19::chr2:74212029..74212067,+ p1@ENST00000441217
Hg19::chr2:74212073..74212109,+ p2@ENST00000441217


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
data


No results for this coexpression

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
data


GO IDGO nameFDR corrected p-value
GO:0043209myelin sheath0.00158954433062522
GO:0019911structural constituent of myelin sheath0.00437124690921936
GO:0008366axon ensheathment0.00635817732250088
GO:0007272ensheathment of neurons0.00635817732250088
GO:0001508regulation of action potential0.00635817732250088
GO:0007417central nervous system development0.0311285764747439
GO:0007268synaptic transmission0.0327843518191452
GO:0019226transmission of nerve impulse0.0327843518191452



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

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
hematopoietic stem cell2.21e-68172
angioblastic mesenchymal cell2.21e-68172
hematopoietic cell1.22e-64182
hematopoietic oligopotent progenitor cell1.50e-64165
hematopoietic multipotent progenitor cell1.50e-64165
leukocyte1.10e-59140
hematopoietic lineage restricted progenitor cell5.17e-50124
nongranular leukocyte4.80e-49119
myeloid cell2.19e-44112
common myeloid progenitor2.19e-44112
myeloid leukocyte2.22e-3676
granulocyte monocyte progenitor cell4.00e-3371
myeloid lineage restricted progenitor cell5.47e-3170
macrophage dendritic cell progenitor7.20e-3165
monopoietic cell1.41e-2963
monocyte1.41e-2963
monoblast1.41e-2963
promonocyte1.41e-2963
CD14-positive, CD16-negative classical monocyte1.74e-2542
classical monocyte1.42e-2445
lymphocyte7.17e-1753
common lymphoid progenitor7.17e-1753
lymphoid lineage restricted progenitor cell1.33e-1652
T cell4.60e-0925
pro-T cell4.60e-0925
mature alpha-beta T cell1.65e-0718
alpha-beta T cell1.65e-0718
immature T cell1.65e-0718
mature T cell1.65e-0718
immature alpha-beta T cell1.65e-0718
lymphocyte of B lineage1.84e-0724
pro-B cell1.84e-0724
Uber Anatomy
Ontology termp-valuen
hematopoietic system9.27e-35102
blood island9.27e-35102
hemolymphoid system6.56e-31112
bone marrow3.51e-2580
bone element2.89e-2386
immune system4.26e-20115
skeletal element5.36e-15101
skeletal system5.36e-15101
blood4.43e-0815
haemolymphatic fluid4.43e-0815
organism substance4.43e-0815
Disease
Ontology termp-valuen
hematologic cancer2.42e-1051
immune system cancer2.42e-1051
leukemia1.05e-0939
myeloid leukemia1.26e-0731


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
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



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

data


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.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.