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Coexpression cluster:C4091

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Full id: C4091_mature_CD14CD16_Dendritic_migratory_CD14_immature_Basophils



Phase1 CAGE Peaks

Hg19::chr22:25960595..25960655,+p1@ADRBK2
Hg19::chr22:25960662..25960688,+p3@ADRBK2
Hg19::chr22:25960941..25961006,+p4@ADRBK2


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
leukocyte5.83e-46136
hematopoietic stem cell1.72e-43168
angioblastic mesenchymal cell1.72e-43168
hematopoietic cell1.47e-40177
hematopoietic oligopotent progenitor cell2.44e-40161
hematopoietic multipotent progenitor cell2.44e-40161
myeloid leukocyte7.94e-3972
myeloid cell2.05e-36108
common myeloid progenitor2.05e-36108
granulocyte monocyte progenitor cell3.37e-3667
nongranular leukocyte9.77e-36115
hematopoietic lineage restricted progenitor cell1.23e-35120
macrophage dendritic cell progenitor2.91e-3561
monopoietic cell5.92e-3459
monocyte5.92e-3459
monoblast5.92e-3459
promonocyte5.92e-3459
myeloid lineage restricted progenitor cell7.81e-3466
defensive cell1.02e-3048
phagocyte1.02e-3048
classical monocyte2.52e-2742
CD14-positive, CD16-negative classical monocyte2.52e-2742
stuff accumulating cell2.73e-2087
lymphocyte of B lineage1.74e-0824
pro-B cell1.74e-0824
intermediate monocyte9.16e-089
CD14-positive, CD16-positive monocyte9.16e-089
dendritic cell1.66e-0710
conventional dendritic cell3.59e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.02e-3598
blood island2.02e-3598
hemolymphoid system9.67e-30108
bone marrow4.03e-2976
bone element2.16e-2782
immune system5.85e-2493
skeletal element4.07e-2390
adult organism7.90e-23114
skeletal system1.06e-18100
neural tube2.80e-1156
neural rod2.80e-1156
future spinal cord2.80e-1156
neural keel2.80e-1156
regional part of nervous system1.22e-1053
regional part of brain1.22e-1053
regional part of forebrain2.45e-0941
forebrain2.45e-0941
anterior neural tube2.45e-0941
future forebrain2.45e-0941
regional part of cerebral cortex3.41e-0922
neocortex2.20e-0820
brain3.51e-0868
future brain3.51e-0868
brain grey matter4.46e-0834
gray matter4.46e-0834
telencephalon5.07e-0834
central nervous system8.29e-0881
cerebral hemisphere8.34e-0832
regional part of telencephalon1.66e-0732
nervous system4.22e-0789
cerebral cortex8.67e-0725
pallium8.67e-0725


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
E2F6#187635.017155731697390.00791769806886330.032296378246134
EBF1#187938.9064668465690.00141523283560980.00916509593341926
HNF4A#3172323.13229036295378.07584663437677e-050.00122949467441352
HNF4G#3174328.75342252644684.20470658818262e-050.000757783177503373
MYC#460935.22228187160940.007020843755740150.0295034764819437
NRF1#4899312.21027944771090.0005492172401020010.00471785650098806
SIN3A#2594235.408884726815140.006318961977991520.027732322142264
ZBTB7A#5134137.35190930787590.002516255860282270.0140494651586217
ZNF263#1012738.221841637010680.001799043925565870.0109608183725455



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.