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Coexpression cluster:C3085

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Full id: C3085_Eosinophils_Neutrophils_optic_granulocyte_CD14_CD8_globus



Phase1 CAGE Peaks

Hg19::chr11:116969131..116969166,-p1@SIK3
Hg19::chrX:153363125..153363182,-p1@MECP2
Hg19::chrX:44732455..44732473,+p2@KDM6A


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


Cell Type
Ontology termp-valuen
leukocyte3.36e-28140
hematopoietic stem cell2.99e-25172
angioblastic mesenchymal cell2.99e-25172
hematopoietic oligopotent progenitor cell2.18e-23165
hematopoietic multipotent progenitor cell2.18e-23165
hematopoietic lineage restricted progenitor cell4.42e-23124
hematopoietic cell1.74e-22182
CD14-positive, CD16-negative classical monocyte4.29e-2242
nongranular leukocyte6.25e-21119
classical monocyte4.71e-2045
myeloid leukocyte9.89e-1876
myeloid cell2.14e-15112
common myeloid progenitor2.14e-15112
granulocyte monocyte progenitor cell4.23e-1571
myeloid lineage restricted progenitor cell3.54e-1470
macrophage dendritic cell progenitor3.46e-1365
monopoietic cell2.12e-1263
monocyte2.12e-1263
monoblast2.12e-1263
promonocyte2.12e-1263
lymphoid lineage restricted progenitor cell1.76e-0852
mature alpha-beta T cell1.99e-0818
alpha-beta T cell1.99e-0818
immature T cell1.99e-0818
mature T cell1.99e-0818
immature alpha-beta T cell1.99e-0818
lymphocyte7.73e-0853
common lymphoid progenitor7.73e-0853
Uber Anatomy
Ontology termp-valuen
adult organism4.77e-38115
neural tube1.25e-1957
neural rod1.25e-1957
future spinal cord1.25e-1957
neural keel1.25e-1957
hematopoietic system9.45e-19102
blood island9.45e-19102
hemolymphoid system5.90e-16112
anterior neural tube1.65e-1542
regional part of forebrain2.41e-1541
forebrain2.41e-1541
future forebrain2.41e-1541
regional part of brain1.08e-1459
central nervous system8.54e-1482
brain4.78e-1369
future brain4.78e-1369
gray matter1.92e-1234
brain grey matter1.92e-1234
bone marrow2.20e-1280
bone element2.25e-1286
telencephalon2.38e-1234
regional part of telencephalon5.57e-1233
neurectoderm8.34e-1290
neural plate8.91e-1286
presumptive neural plate8.91e-1286
regional part of nervous system1.91e-1194
nervous system1.91e-1194
cerebral hemisphere2.97e-1132
immune system8.12e-10115
regional part of cerebral cortex1.40e-0922
neocortex7.62e-0920
skeletal element3.29e-08101
skeletal system3.29e-08101
cerebral cortex3.97e-0825
pallium3.97e-0825
pre-chordal neural plate1.21e-0761


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
ATF3#467214.97544968400580.005768294540793880.0259446560527981
CCNT2#90536.336201576962630.003930750035764890.0189146518146539
E2F1#186934.907389214879320.008460985347239390.0323589002739247
NFE2#4778251.4695071010860.0004987653528392110.0044054934611954
NFYA#4800212.28372046655370.008516011403724430.0324623591135694
NFYB#4801211.17319550235760.01025467135054530.0381120821742855
PBX3#5090214.60967512449610.006056122473217890.0268086031865555
SP2#6668217.43568699589640.004273568481769740.0203079087572823
SREBF1#6720231.33723296032550.00133816265136180.0088722936227511
YY1#752834.911170749853860.008441455341808260.0327933772668916



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.