Coexpression cluster:C314
From FANTOM5_SSTAR
Full id: C314_Macrophage_Dendritic_Monocytederived_CD14_Esophageal_Mast_Keratinocyte
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
| p.value | FDR | nGenes | nPathway | Name |
|---|---|---|---|---|
| 5.2977040485515e-09 | 3.3534466627331e-06 | 5 | 121 | Lysosome (KEGG):04142 |
| 4.72529853545926e-05 | 0.00997037990981903 | 3 | 128 | Osteoclast differentiation (KEGG):04380 |
| 2.61528773412653e-05 | 0.00827738567851046 | 3 | 105 | Membrane Trafficking (Reactome):REACT_11123 |
| 0.000300489277244246 | 0.047552428123902 | 2 | 46 | Interactions of the immunoglobulin superfamily (IgSF) member proteins (Reactome):REACT_23853 |
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:0005764 | lysosome | 4.52582062239315e-06 |
| GO:0000323 | lytic vacuole | 4.52582062239315e-06 |
| GO:0005773 | vacuole | 6.15010206948201e-06 |
| GO:0030290 | sphingolipid activator protein activity | 0.012127634522548 |
| GO:0032428 | beta-N-acetylgalactosaminidase activity | 0.012127634522548 |
| GO:0047939 | L-glucuronate reductase activity | 0.012127634522548 |
| GO:0046185 | aldehyde catabolic process | 0.012127634522548 |
| GO:0042839 | D-glucuronate metabolic process | 0.012127634522548 |
| GO:0042840 | D-glucuronate catabolic process | 0.012127634522548 |
| GO:0008449 | N-acetylglucosamine-6-sulfatase activity | 0.012127634522548 |
| GO:0019853 | L-ascorbic acid biosynthetic process | 0.012127634522548 |
| GO:0006064 | glucuronate catabolic process | 0.012127634522548 |
| GO:0007243 | protein kinase cascade | 0.0132272258457848 |
| GO:0045177 | apical part of cell | 0.0132272258457848 |
| GO:0009056 | catabolic process | 0.0132272258457848 |
| GO:0005889 | hydrogen:potassium-exchanging ATPase complex | 0.0132272258457848 |
| GO:0015761 | mannose transport | 0.0132272258457848 |
| GO:0008106 | alcohol dehydrogenase (NADP+) activity | 0.0132272258457848 |
| GO:0015578 | mannose transmembrane transporter activity | 0.0132272258457848 |
| GO:0016004 | phospholipase activator activity | 0.0132272258457848 |
| GO:0045179 | apical cortex | 0.0132272258457848 |
| GO:0009313 | oligosaccharide catabolic process | 0.0132272258457848 |
| GO:0008339 | MP kinase activity | 0.0161630403516077 |
| GO:0004032 | aldehyde reductase activity | 0.0161630403516077 |
| GO:0006063 | uronic acid metabolic process | 0.0161630403516077 |
| GO:0019852 | L-ascorbic acid metabolic process | 0.0161630403516077 |
| GO:0019585 | glucuronate metabolic process | 0.0161630403516077 |
| GO:0004563 | beta-N-acetylhexosaminidase activity | 0.0191472672715482 |
| GO:0008247 | 2-acetyl-1-alkylglycerophosphocholine esterase complex | 0.0191472672715482 |
| GO:0006689 | ganglioside catabolic process | 0.0191472672715482 |
| GO:0007249 | I-kappaB kinase/NF-kappaB cascade | 0.0191472672715482 |
| GO:0016042 | lipid catabolic process | 0.0204320329707988 |
| GO:0046479 | glycosphingolipid catabolic process | 0.021805657903249 |
| GO:0008333 | endosome to lysosome transport | 0.021805657903249 |
| GO:0006026 | aminoglycan catabolic process | 0.021805657903249 |
| GO:0016909 | SAP kinase activity | 0.021805657903249 |
| GO:0050700 | CARD domain binding | 0.021805657903249 |
| GO:0003847 | 1-alkyl-2-acetylglycerophosphocholine esterase activity | 0.021805657903249 |
| GO:0006027 | glycosaminoglycan catabolic process | 0.021805657903249 |
| GO:0009898 | internal side of plasma membrane | 0.021805657903249 |
| GO:0005737 | cytoplasm | 0.0226485989309556 |
| GO:0019377 | glycolipid catabolic process | 0.0242231611391587 |
| GO:0019915 | sequestering of lipid | 0.0260623078098239 |
| GO:0001573 | ganglioside metabolic process | 0.0260623078098239 |
| GO:0044425 | membrane part | 0.0260623078098239 |
| GO:0016054 | organic acid catabolic process | 0.0309027153522172 |
| GO:0046395 | carboxylic acid catabolic process | 0.0309027153522172 |
| GO:0016020 | membrane | 0.0322521867971921 |
| GO:0030071 | regulation of mitotic metaphase/anaphase transition | 0.0325983230004245 |
| GO:0004033 | aldo-keto reductase activity | 0.0328706422062493 |
| GO:0005537 | mannose binding | 0.0328706422062493 |
| GO:0007091 | mitotic metaphase/anaphase transition | 0.0328706422062493 |
| GO:0007250 | activation of NF-kappaB-inducing kinase | 0.0328706422062493 |
| GO:0005975 | carbohydrate metabolic process | 0.0331554372984391 |
| GO:0044248 | cellular catabolic process | 0.033577971469853 |
| GO:0043085 | positive regulation of catalytic activity | 0.0349332211990327 |
| GO:0007041 | lysosomal transport | 0.0356421855368791 |
| GO:0030149 | sphingolipid catabolic process | 0.0375213613292531 |
| GO:0048029 | monosaccharide binding | 0.0410886012693866 |
| GO:0015929 | hexosaminidase activity | 0.0410886012693866 |
| GO:0050885 | neuromuscular process controlling balance | 0.0427829322362058 |
| GO:0006687 | glycosphingolipid metabolic process | 0.0444215781542066 |
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 | 4.16e-79 | 98 |
| blood island | 4.16e-79 | 98 |
| bone marrow | 5.90e-76 | 76 |
| hemolymphoid system | 5.38e-75 | 108 |
| immune system | 7.86e-74 | 93 |
| bone element | 3.06e-69 | 82 |
| skeletal element | 1.14e-61 | 90 |
| skeletal system | 6.65e-54 | 100 |
| lateral plate mesoderm | 5.88e-35 | 203 |
| musculoskeletal system | 1.76e-29 | 167 |
| mesoderm | 3.08e-22 | 315 |
| mesoderm-derived structure | 3.08e-22 | 315 |
| presumptive mesoderm | 3.08e-22 | 315 |
| germ layer | 7.00e-09 | 560 |
| germ layer / neural crest | 7.00e-09 | 560 |
| embryonic tissue | 7.00e-09 | 560 |
| presumptive structure | 7.00e-09 | 560 |
| germ layer / neural crest derived structure | 7.00e-09 | 560 |
| epiblast (generic) | 7.00e-09 | 560 |
| embryonic structure | 1.14e-08 | 564 |
| organ | 1.91e-08 | 503 |
| developing anatomical structure | 2.70e-08 | 581 |
| connective tissue | 7.63e-08 | 371 |
| embryo | 9.50e-08 | 592 |
| anatomical system | 2.98e-07 | 624 |
| anatomical group | 3.31e-07 | 625 |
| adult organism | 6.95e-07 | 114 |
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) |
|---|---|
| MA0003.1 | 0.35984 |
| MA0004.1 | 1.73666 |
| MA0006.1 | 0.0748843 |
| MA0007.1 | 0.762606 |
| MA0009.1 | 0.340234 |
| MA0014.1 | 0.814487 |
| MA0017.1 | 1.52767 |
| MA0019.1 | 0.800905 |
| MA0024.1 | 0.261871 |
| MA0025.1 | 0.448136 |
| MA0027.1 | 1.8578 |
| MA0028.1 | 0.0858631 |
| MA0029.1 | 0.275814 |
| MA0030.1 | 0.267514 |
| MA0031.1 | 0.222414 |
| MA0038.1 | 0.341188 |
| MA0040.1 | 0.280083 |
| MA0041.1 | 0.0671563 |
| MA0042.1 | 0.202534 |
| MA0043.1 | 0.902517 |
| MA0046.1 | 0.331797 |
| MA0048.1 | 0.436461 |
| MA0050.1 | 0.448287 |
| MA0051.1 | 0.10258 |
| MA0052.1 | 0.282917 |
| MA0055.1 | 0.609737 |
| MA0056.1 | 0 |
| MA0057.1 | 0.171126 |
| MA0058.1 | 2.71276 |
| MA0059.1 | 1.23663 |
| MA0060.1 | 0.0191619 |
| MA0061.1 | 0.735081 |
| MA0063.1 | 0 |
| MA0066.1 | 0.104867 |
| MA0067.1 | 0.607707 |
| MA0068.1 | 0.519997 |
| MA0069.1 | 0.328825 |
| MA0070.1 | 0.320241 |
| MA0071.1 | 0.0863631 |
| MA0072.1 | 0.31681 |
| MA0073.1 | 0.0894974 |
| MA0074.1 | 0.684284 |
| MA0076.1 | 0.13753 |
| MA0077.1 | 0.310955 |
| MA0078.1 | 0.921365 |
| MA0081.1 | 0.856296 |
| MA0083.1 | 0.346089 |
| MA0084.1 | 0.778769 |
| MA0087.1 | 0.314949 |
| MA0088.1 | 0.646938 |
| MA0089.1 | 0 |
| MA0090.1 | 0.0383435 |
| MA0091.1 | 0.478767 |
| MA0092.1 | 0.1799 |
| MA0093.1 | 2.18474 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.359565 |
| MA0101.1 | 0.079118 |
| MA0103.1 | 0.180166 |
| MA0105.1 | 0.223736 |
| MA0106.1 | 0.125937 |
| MA0107.1 | 0.108386 |
| MA0108.2 | 0.220346 |
| MA0109.1 | 0 |
| MA0111.1 | 0.665563 |
| MA0113.1 | 0.419724 |
| MA0114.1 | 0.609295 |
| MA0115.1 | 0.540206 |
| MA0116.1 | 2.48859 |
| MA0117.1 | 0.369828 |
| MA0119.1 | 0.495524 |
| MA0122.1 | 0.390603 |
| MA0124.1 | 0.504249 |
| MA0125.1 | 0.433225 |
| MA0130.1 | 0 |
| MA0131.1 | 0.500131 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.364077 |
| MA0136.1 | 1.17291 |
| MA0139.1 | 0.0343753 |
| MA0140.1 | 0.288493 |
| MA0141.1 | 0.849021 |
| MA0142.1 | 0.201309 |
| MA0143.1 | 0.134991 |
| MA0144.1 | 0.0296118 |
| MA0145.1 | 0.581966 |
| MA0146.1 | 0.335436 |
| MA0147.1 | 0.243119 |
| MA0148.1 | 0.0697009 |
| MA0149.1 | 0.276655 |
| MA0062.2 | 0.185973 |
| MA0035.2 | 0.0848533 |
| MA0039.2 | 0.196139 |
| MA0138.2 | 0.924385 |
| MA0002.2 | 0.233979 |
| MA0137.2 | 0.0205235 |
| MA0104.2 | 0.428693 |
| MA0047.2 | 0.119486 |
| MA0112.2 | 1.09571 |
| MA0065.2 | 0.320244 |
| MA0150.1 | 0.1453 |
| MA0151.1 | 0 |
| MA0152.1 | 0.617339 |
| MA0153.1 | 0.419293 |
| MA0154.1 | 0.3257 |
| MA0155.1 | 0.159223 |
| MA0156.1 | 0.712454 |
| MA0157.1 | 0.183768 |
| MA0158.1 | 0 |
| MA0159.1 | 1.66071 |
| MA0160.1 | 0.55715 |
| MA0161.1 | 0 |
| MA0162.1 | 0.222108 |
| MA0163.1 | 0.379462 |
| MA0164.1 | 0.141853 |
| MA0080.2 | 1.72508 |
| MA0018.2 | 0.126682 |
| MA0099.2 | 1.03556 |
| MA0079.2 | 0.0911683 |
| MA0102.2 | 0.813509 |
| MA0258.1 | 0.753327 |
| MA0259.1 | 0.125674 |
| MA0442.1 | 0 |
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.
