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Coexpression cluster:C780

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Full id: C780_Dendritic_CD14_CD14CD16_CD19_splenic_xeroderma_spleen



Phase1 CAGE Peaks

Hg19::chr10:134146041..134146067,-p6@STK32C
Hg19::chr14:100531693..100531705,+p6@EVL
Hg19::chr17:5138099..5138164,-p1@SCIMP
Hg19::chr17:5138587..5138602,-p3@SCIMP
Hg19::chr1:112016563..112016574,+p2@C1orf162
Hg19::chr6:36973406..36973438,+p1@FGD2
Hg19::chr6:36973449..36973454,+p4@FGD2
Hg19::chr6:36996408..36996411,+p@chr6:36996408..36996411
+
Hg19::chr7:100272664..100272708,+p14@GNB2
Hg19::chr9:74920462..74920487,+p1@ENST00000451152


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:0030027lamellipodium0.00176828189709051
GO:0031252leading edge0.00304382497822467
GO:0030036actin cytoskeleton organization and biogenesis0.0191085120955059
GO:0030029actin filament-based process0.0191085120955059
GO:0005522profilin binding0.0191085120955059
GO:0042995cell projection0.0191085120955059
GO:0032488Cdc42 protein signal transduction0.0203012799919833
GO:0043088regulation of Cdc42 GTPase activity0.0203012799919833
GO:0032489regulation of Cdc42 protein signal transduction0.0203012799919833
GO:0005246calcium channel regulator activity0.0221429395266416
GO:0032319regulation of Rho GTPase activity0.0221429395266416
GO:0017124SH3 domain binding0.0338135608774231
GO:0046847filopodium formation0.0347714729057789
GO:0030035microspike biogenesis0.0347714729057789
GO:0007010cytoskeleton organization and biogenesis0.0359745203502693
GO:0005925focal adhesion0.0363003890048804
GO:0016247channel regulator activity0.0363003890048804
GO:0005924cell-substrate adherens junction0.0363003890048804
GO:0030055cell-matrix junction0.0363003890048804
GO:0007015actin filament organization0.0363003890048804
GO:0022603regulation of anatomical structure morphogenesis0.0363003890048804
GO:0022604regulation of cell morphogenesis0.0363003890048804
GO:0008360regulation of cell shape0.0363003890048804
GO:0001726ruffle0.0363003890048804
GO:0030031cell projection biogenesis0.0405046679240081
GO:0005912adherens junction0.0420526351365762
GO:0009653anatomical structure morphogenesis0.0440925912246133
GO:0008154actin polymerization and/or depolymerization0.0440925912246133



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>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
leukocyte2.60e-57140
hematopoietic stem cell2.33e-56172
angioblastic mesenchymal cell2.33e-56172
hematopoietic oligopotent progenitor cell7.50e-53165
hematopoietic multipotent progenitor cell7.50e-53165
nongranular leukocyte1.36e-50119
hematopoietic lineage restricted progenitor cell7.19e-50124
hematopoietic cell6.45e-49182
myeloid leukocyte2.79e-3376
myeloid cell2.51e-32112
common myeloid progenitor2.51e-32112
granulocyte monocyte progenitor cell1.15e-3171
macrophage dendritic cell progenitor1.09e-3065
myeloid lineage restricted progenitor cell4.20e-3070
monopoietic cell8.48e-3063
monocyte8.48e-3063
monoblast8.48e-3063
promonocyte8.48e-3063
CD14-positive, CD16-negative classical monocyte1.87e-2742
classical monocyte1.20e-2345
lymphocyte6.82e-1853
common lymphoid progenitor6.82e-1853
lymphoid lineage restricted progenitor cell1.47e-1752
lymphocyte of B lineage4.97e-1324
pro-B cell4.97e-1324
B cell2.89e-0914
intermediate monocyte8.45e-089
CD14-positive, CD16-positive monocyte8.45e-089
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.10e-34102
blood island8.10e-34102
adult organism1.09e-31115
hemolymphoid system1.89e-31112
bone marrow4.31e-2680
bone element4.66e-2286
immune system9.80e-21115
skeletal element9.54e-17101
skeletal system9.54e-17101
neural tube1.99e-0957
neural rod1.99e-0957
future spinal cord1.99e-0957
neural keel1.99e-0957
lateral plate mesoderm1.28e-08216
anterior neural tube7.38e-0842
regional part of forebrain1.25e-0741
forebrain1.25e-0741
future forebrain1.25e-0741


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BCL11A#5333538.510836531082120.004359854807656360.0206699748629907
EBF1#187954.45323342328450.002759080257038690.0151270713929794
IRF4#3662510.95725634337214.10495409675721e-050.000745595305932568
SPI1#668875.743026455965913.41922598863134e-050.000677996094601611



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.