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Coexpression cluster:C1932

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Full id: C1932_immature_migratory_Monocytederived_CD14_plasma_Dendritic_Macrophage



Phase1 CAGE Peaks

Hg19::chr4:10686355..10686365,-p4@CLNK
Hg19::chr4:184181710..184181715,+p@chr4:184181710..184181715
+
Hg19::chr6:32610954..32610967,+p12@HLA-DQA1
Hg19::chr6:32709159..32709175,+p1@HLA-DQA2
Hg19::chr6:32725594..32725620,-p@chr6:32725594..32725620
-


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:0002504antigen processing and presentation of peptide or polysaccharide antigen via MHC class II0.000172425623571692
GO:0042613MHC class II protein complex0.000172425623571692
GO:0042611MHC protein complex0.000818807252234725
GO:0019882antigen processing and presentation0.000818807252234725
GO:0032395MHC class II receptor activity0.00448787011083415
GO:0006955immune response0.00448787011083415
GO:0002376immune system process0.00522767039823827
GO:0044459plasma membrane part0.0124361385279608
GO:0043234protein complex0.0175990547962191
GO:0005886plasma membrane0.026123025269096
GO:0032991macromolecular complex0.026123025269096



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
leukocyte4.94e-52140
nongranular leukocyte1.65e-46119
hematopoietic lineage restricted progenitor cell3.38e-45124
hematopoietic stem cell6.26e-43172
angioblastic mesenchymal cell6.26e-43172
hematopoietic cell5.00e-41182
hematopoietic oligopotent progenitor cell4.79e-40165
hematopoietic multipotent progenitor cell4.79e-40165
granulocyte monocyte progenitor cell2.03e-2671
macrophage dendritic cell progenitor4.84e-2665
myeloid leukocyte1.65e-2476
monopoietic cell2.06e-2463
monocyte2.06e-2463
monoblast2.06e-2463
promonocyte2.06e-2463
myeloid lineage restricted progenitor cell7.36e-2470
CD14-positive, CD16-negative classical monocyte1.80e-2342
classical monocyte2.02e-2145
myeloid cell2.93e-20112
common myeloid progenitor2.93e-20112
lymphocyte4.54e-1953
common lymphoid progenitor4.54e-1953
lymphoid lineage restricted progenitor cell1.55e-1852
lymphocyte of B lineage8.19e-1424
pro-B cell8.19e-1424
dendritic cell4.14e-0910
B cell2.33e-0814
conventional dendritic cell7.63e-088
intermediate monocyte9.18e-089
CD14-positive, CD16-positive monocyte9.18e-089
Uber Anatomy
Ontology termp-valuen
hematopoietic system9.35e-35102
blood island9.35e-35102
adult organism1.98e-34115
hemolymphoid system4.87e-31112
bone marrow1.56e-2280
immune system8.88e-20115
bone element3.53e-1986
skeletal element1.94e-14101
skeletal system1.94e-14101
blood2.82e-0915
haemolymphatic fluid2.82e-0915
organism substance2.82e-0915
lateral plate mesoderm7.43e-08216
neural tube1.46e-0757
neural rod1.46e-0757
future spinal cord1.46e-0757
neural keel1.46e-0757


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


No analysis results for this cluster

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.