Coexpression cluster:C92
From FANTOM5_SSTAR
Full id: C92_CD14CD16_CD14_Eosinophils_Basophils_Neutrophils_Macrophage_Whole
Phase1 CAGE Peaks
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 ID | GO name | FDR corrected p-value |
|---|---|---|
| GO:0016020 | membrane | 9.32023741352661e-06 |
| GO:0004871 | signal transducer activity | 4.97454272835934e-05 |
| GO:0060089 | molecular transducer activity | 4.97454272835934e-05 |
| GO:0044425 | membrane part | 0.000885377741452317 |
| GO:0008285 | negative regulation of cell proliferation | 0.0010982489843916 |
| GO:0019864 | IgG binding | 0.00389780543213328 |
| GO:0050672 | negative regulation of lymphocyte proliferation | 0.00492500838025483 |
| GO:0032945 | negative regulation of mononuclear cell proliferation | 0.00492500838025483 |
| GO:0048523 | negative regulation of cellular process | 0.00492500838025483 |
| GO:0004872 | receptor activity | 0.00492500838025483 |
| GO:0044464 | cell part | 0.00492500838025483 |
| GO:0048519 | negative regulation of biological process | 0.00520183320258003 |
| GO:0019865 | immunoglobulin binding | 0.00688185411257371 |
| GO:0016021 | integral to membrane | 0.00688185411257371 |
| GO:0031224 | intrinsic to membrane | 0.00688185411257371 |
| GO:0005886 | plasma membrane | 0.00688185411257371 |
| GO:0051250 | negative regulation of lymphocyte activation | 0.00832577728169739 |
| GO:0032403 | protein complex binding | 0.00879372966006079 |
| GO:0042127 | regulation of cell proliferation | 0.00921920829385283 |
| GO:0008283 | cell proliferation | 0.00968728738051494 |
| GO:0030595 | leukocyte chemotaxis | 0.00993913319223597 |
| GO:0050900 | leukocyte migration | 0.0173228094301686 |
| GO:0042330 | taxis | 0.0181469423724365 |
| GO:0006935 | chemotaxis | 0.0181469423724365 |
| GO:0007166 | cell surface receptor linked signal transduction | 0.0181469423724365 |
| GO:0006952 | defense response | 0.0181469423724365 |
| GO:0007165 | signal transduction | 0.018334818823925 |
| GO:0045554 | regulation of TRAIL biosynthetic process | 0.0188999696750325 |
| GO:0043129 | surfactant homeostasis | 0.0188999696750325 |
| GO:0045553 | TRAIL biosynthetic process | 0.0188999696750325 |
| GO:0048875 | chemical homeostasis within a tissue | 0.0188999696750325 |
| GO:0032639 | TRAIL production | 0.0188999696750325 |
| GO:0045556 | positive regulation of TRAIL biosynthetic process | 0.0188999696750325 |
| GO:0009605 | response to external stimulus | 0.0188999696750325 |
| GO:0005737 | cytoplasm | 0.0188999696750325 |
| GO:0032944 | regulation of mononuclear cell proliferation | 0.0188999696750325 |
| GO:0050670 | regulation of lymphocyte proliferation | 0.0188999696750325 |
| GO:0006928 | cell motility | 0.0198542754536055 |
| GO:0051674 | localization of cell | 0.0198542754536055 |
| GO:0007626 | locomotory behavior | 0.0214749844586034 |
| GO:0002376 | immune system process | 0.0236206013010033 |
| GO:0030695 | GTPase regulator activity | 0.0249523236786799 |
| GO:0032943 | mononuclear cell proliferation | 0.0252075945113539 |
| GO:0046651 | lymphocyte proliferation | 0.0252075945113539 |
| GO:0044459 | plasma membrane part | 0.0260685840256939 |
| GO:0005515 | protein binding | 0.0276131105418551 |
| GO:0019807 | aspartoacylase activity | 0.0276131105418551 |
| GO:0047696 | beta-adrenergic receptor kinase activity | 0.0276131105418551 |
| GO:0042035 | regulation of cytokine biosynthetic process | 0.0289078836085141 |
| GO:0007154 | cell communication | 0.0299010405478368 |
| GO:0016477 | cell migration | 0.0331147653005901 |
| GO:0042089 | cytokine biosynthetic process | 0.0331147653005901 |
| GO:0042107 | cytokine metabolic process | 0.0331147653005901 |
| GO:0033209 | tumor necrosis factor-mediated signaling pathway | 0.0331147653005901 |
| GO:0048286 | alveolus development | 0.0331147653005901 |
| GO:0022401 | adaptation of signaling pathway | 0.0331147653005901 |
| GO:0008157 | protein phosphatase 1 binding | 0.0331147653005901 |
| GO:0002029 | desensitization of G-protein coupled receptor protein signaling pathway | 0.0331147653005901 |
| GO:0045085 | negative regulation of interleukin-2 biosynthetic process | 0.0331147653005901 |
| GO:0042608 | T cell receptor binding | 0.0331147653005901 |
| GO:0006955 | immune response | 0.0344981384493859 |
| GO:0051249 | regulation of lymphocyte activation | 0.0363072331852681 |
| GO:0050865 | regulation of cell activation | 0.0389339002729788 |
| GO:0045744 | negative regulation of G-protein coupled receptor protein signaling pathway | 0.0389339002729788 |
| GO:0048246 | macrophage chemotaxis | 0.0389339002729788 |
| GO:0048247 | lymphocyte chemotaxis | 0.0389339002729788 |
| GO:0015051 | X-opioid receptor activity | 0.0389339002729788 |
| GO:0004046 | aminoacylase activity | 0.0389339002729788 |
| GO:0007186 | G-protein coupled receptor protein signaling pathway | 0.039985979963799 |
| GO:0051329 | interphase of mitotic cell cycle | 0.039985979963799 |
| GO:0051239 | regulation of multicellular organismal process | 0.0400152244196185 |
| GO:0000267 | cell fraction | 0.0427906431484107 |
| GO:0051325 | interphase | 0.0428389829493994 |
| GO:0050828 | regulation of liquid surface tension | 0.0440488207431105 |
| GO:0042535 | positive regulation of tumor necrosis factor biosynthetic process | 0.0440488207431105 |
| GO:0007610 | behavior | 0.0440488207431105 |
| GO:0005085 | guanyl-nucleotide exchange factor activity | 0.0498283844727028 |
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>
| Ontology term | p-value | n |
|---|---|---|
| hematopoietic system | 7.66e-87 | 98 |
| blood island | 7.66e-87 | 98 |
| hemolymphoid system | 1.20e-80 | 108 |
| bone marrow | 7.87e-66 | 76 |
| immune system | 1.27e-62 | 93 |
| bone element | 2.97e-60 | 82 |
| skeletal element | 5.79e-54 | 90 |
| skeletal system | 1.67e-47 | 100 |
| lateral plate mesoderm | 2.05e-35 | 203 |
| musculoskeletal system | 4.11e-24 | 167 |
| mesoderm | 3.63e-19 | 315 |
| mesoderm-derived structure | 3.63e-19 | 315 |
| presumptive mesoderm | 3.63e-19 | 315 |
| blood | 5.57e-18 | 15 |
| haemolymphatic fluid | 5.57e-18 | 15 |
| organism substance | 5.57e-18 | 15 |
| connective tissue | 1.19e-10 | 371 |
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 | #promoters | Enrichment | p-value | q-value |
|---|---|---|---|---|
| SPI1#6688 | 59 | 2.39631231189525 | 8.62809779252941e-11 | 9.43570581522491e-09 |
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
