Coexpression cluster:C587
From FANTOM5_SSTAR
Full id: C587_Osteoblast_Monocytederived_CD14_Macrophage_leiomyoma_Adipocyte_Dendritic
Phase1 CAGE Peaks
Hg19::chr11:1774396..1774410,- | p@chr11:1774396..1774410 - |
Hg19::chr11:1774555..1774567,- | p@chr11:1774555..1774567 - |
Hg19::chr11:1774591..1774602,- | p@chr11:1774591..1774602 - |
Hg19::chr11:1774626..1774637,- | p@chr11:1774626..1774637 - |
Hg19::chr11:1774653..1774680,- | p@chr11:1774653..1774680 - |
Hg19::chr11:1774731..1774765,- | p@chr11:1774731..1774765 - |
Hg19::chr11:1778628..1778664,- | p3@CTSD |
Hg19::chr11:1780775..1780793,- | p2@ENST00000427721 |
Hg19::chr11:1780825..1780859,- | p@chr11:1780825..1780859 - |
Hg19::chr11:1782587..1782602,- | p@chr11:1782587..1782602 - |
Hg19::chr17:42429493..42429515,+ | p@chr17:42429493..42429515 + |
Hg19::chr19:40872708..40872743,+ | p8@PLD3 |
Hg19::chr19:49469548..49469569,+ | p@chr19:49469548..49469569 + |
Hg19::chr2:85628961..85628975,- | p10@CAPG |
Hg19::chr7:97911681..97911696,+ | p@chr7:97911681..97911696 + |
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:0048770 | pigment granule | 0.000962696371097009 |
GO:0042470 | melanosome | 0.000962696371097009 |
GO:0004192 | cathepsin D activity | 0.00320852466737313 |
GO:0016023 | cytoplasmic membrane-bound vesicle | 0.00695351994664752 |
GO:0031988 | membrane-bound vesicle | 0.00695351994664752 |
GO:0031410 | cytoplasmic vesicle | 0.00721811799281055 |
GO:0031982 | vesicle | 0.00721811799281055 |
GO:0004630 | phospholipase D activity | 0.00721811799281055 |
GO:0008290 | F-actin capping protein complex | 0.0158032041510128 |
GO:0051693 | actin filament capping | 0.0158032041510128 |
GO:0051016 | barbed-end actin filament capping | 0.0158032041510128 |
GO:0030835 | negative regulation of actin filament depolymerization | 0.0158032041510128 |
GO:0030834 | regulation of actin filament depolymerization | 0.0158032041510128 |
GO:0030042 | actin filament depolymerization | 0.0158032041510128 |
GO:0004194 | pepsin A activity | 0.0166720528007639 |
GO:0044444 | cytoplasmic part | 0.0168152519673891 |
GO:0008064 | regulation of actin polymerization and/or depolymerization | 0.0215137929918326 |
GO:0051261 | protein depolymerization | 0.0215137929918326 |
GO:0030832 | regulation of actin filament length | 0.0215137929918326 |
GO:0032535 | regulation of cellular component size | 0.0215137929918326 |
GO:0032956 | regulation of actin cytoskeleton organization and biogenesis | 0.0215137929918326 |
GO:0030031 | cell projection biogenesis | 0.0215263959366968 |
GO:0051129 | negative regulation of cellular component organization and biogenesis | 0.0215263959366968 |
GO:0051493 | regulation of cytoskeleton organization and biogenesis | 0.0215263959366968 |
GO:0033043 | regulation of organelle organization and biogenesis | 0.0215263959366968 |
GO:0008154 | actin polymerization and/or depolymerization | 0.0225432140480013 |
GO:0004190 | aspartic-type endopeptidase activity | 0.0302278645094982 |
GO:0051128 | regulation of cellular component organization and biogenesis | 0.0342769630157552 |
GO:0051248 | negative regulation of protein metabolic process | 0.0344147421805016 |
GO:0004620 | phospholipase activity | 0.0375507630894644 |
GO:0005737 | cytoplasm | 0.0375507630894644 |
GO:0008081 | phosphoric diester hydrolase activity | 0.04095819083259 |
GO:0016298 | lipase activity | 0.04095819083259 |
GO:0016042 | lipid catabolic process | 0.0411571714271229 |
GO:0004091 | carboxylesterase activity | 0.0464739618400419 |
GO:0043231 | intracellular membrane-bound organelle | 0.0464739618400419 |
GO:0043227 | membrane-bound organelle | 0.0464739618400419 |
GO:0005764 | lysosome | 0.0464739618400419 |
GO:0000323 | lytic vacuole | 0.0464739618400419 |
GO:0032990 | cell part morphogenesis | 0.0464739618400419 |
GO:0030030 | cell projection organization and biogenesis | 0.0464739618400419 |
GO:0048858 | cell projection morphogenesis | 0.0464739618400419 |
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 |
---|---|---|
stuff accumulating cell | 3.40e-17 | 87 |
defensive cell | 1.26e-15 | 48 |
phagocyte | 1.26e-15 | 48 |
myeloid lineage restricted progenitor cell | 1.79e-15 | 66 |
granulocyte monocyte progenitor cell | 4.28e-15 | 67 |
monopoietic cell | 6.79e-15 | 59 |
monocyte | 6.79e-15 | 59 |
monoblast | 6.79e-15 | 59 |
promonocyte | 6.79e-15 | 59 |
myeloid leukocyte | 1.59e-14 | 72 |
macrophage dendritic cell progenitor | 4.77e-14 | 61 |
classical monocyte | 4.88e-12 | 42 |
CD14-positive, CD16-negative classical monocyte | 4.88e-12 | 42 |
Ontology term | p-value | n |
---|---|---|
mesoderm | 8.10e-14 | 315 |
mesoderm-derived structure | 8.10e-14 | 315 |
presumptive mesoderm | 8.10e-14 | 315 |
bone marrow | 1.95e-13 | 76 |
multi-cellular organism | 1.22e-12 | 656 |
bone element | 2.00e-12 | 82 |
skeletal element | 2.19e-12 | 90 |
immune system | 5.83e-12 | 93 |
skeletal system | 2.14e-11 | 100 |
musculoskeletal system | 2.00e-10 | 167 |
anatomical system | 2.18e-09 | 624 |
anatomical group | 3.08e-09 | 625 |
hemolymphoid system | 4.87e-09 | 108 |
organ | 6.01e-09 | 503 |
hematopoietic system | 2.19e-08 | 98 |
blood island | 2.19e-08 | 98 |
germ layer | 4.71e-08 | 560 |
germ layer / neural crest | 4.71e-08 | 560 |
embryonic tissue | 4.71e-08 | 560 |
presumptive structure | 4.71e-08 | 560 |
germ layer / neural crest derived structure | 4.71e-08 | 560 |
epiblast (generic) | 4.71e-08 | 560 |
embryonic structure | 1.18e-07 | 564 |
lateral plate mesoderm | 1.80e-07 | 203 |
developing anatomical structure | 5.82e-07 | 581 |
embryo | 5.83e-07 | 592 |
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 | 1.15038 |
MA0004.1 | 0.256222 |
MA0006.1 | 0.137644 |
MA0007.1 | 1.25763 |
MA0009.1 | 0.669377 |
MA0014.1 | 0.142864 |
MA0017.1 | 0.16476 |
MA0019.1 | 0.38027 |
MA0024.1 | 0.570967 |
MA0025.1 | 0.796882 |
MA0027.1 | 2.25966 |
MA0028.1 | 0.148561 |
MA0029.1 | 0.588958 |
MA0030.1 | 0.578277 |
MA0031.1 | 0.518602 |
MA0038.1 | 0.34128 |
MA0040.1 | 0.594421 |
MA0041.1 | 0.27117 |
MA0042.1 | 0.245557 |
MA0043.1 | 0.669676 |
MA0046.1 | 0.659066 |
MA0048.1 | 0.441458 |
MA0050.1 | 0.246257 |
MA0051.1 | 0.337676 |
MA0052.1 | 0.598036 |
MA0055.1 | 0.229721 |
MA0056.1 | 0 |
MA0057.1 | 0.688135 |
MA0058.1 | 0.538866 |
MA0059.1 | 0.182001 |
MA0060.1 | 0.0671843 |
MA0061.1 | 5.54703 |
MA0063.1 | 0 |
MA0066.1 | 0.341645 |
MA0067.1 | 0.975379 |
MA0068.1 | 0.0373092 |
MA0069.1 | 0.655419 |
MA0070.1 | 0.644843 |
MA0071.1 | 0.308534 |
MA0072.1 | 0.640598 |
MA0073.1 | 8.31188 |
MA0074.1 | 0.894848 |
MA0076.1 | 0.194691 |
MA0077.1 | 0.633326 |
MA0078.1 | 0.424186 |
MA0081.1 | 0.18212 |
MA0083.1 | 0.676499 |
MA0084.1 | 1.15904 |
MA0087.1 | 0.63829 |
MA0088.1 | 2.0778 |
MA0089.1 | 0 |
MA0090.1 | 0.205547 |
MA0091.1 | 0.716673 |
MA0092.1 | 0.228476 |
MA0093.1 | 0.139688 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.353174 |
MA0101.1 | 0.437519 |
MA0103.1 | 1.91714 |
MA0105.1 | 1.29048 |
MA0106.1 | 0.37688 |
MA0107.1 | 1.08326 |
MA0108.2 | 0.515791 |
MA0109.1 | 0 |
MA0111.1 | 0.215855 |
MA0113.1 | 0.39123 |
MA0114.1 | 1.57072 |
MA0115.1 | 0.900969 |
MA0116.1 | 3.57057 |
MA0117.1 | 0.705104 |
MA0119.1 | 0.170362 |
MA0122.1 | 0.729811 |
MA0124.1 | 0.860724 |
MA0125.1 | 0.779672 |
MA0130.1 | 0 |
MA0131.1 | 0.440395 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.698212 |
MA0136.1 | 0.347318 |
MA0139.1 | 0.71772 |
MA0140.1 | 0.30631 |
MA0141.1 | 0.180729 |
MA0142.1 | 0.489543 |
MA0143.1 | 0.391385 |
MA0144.1 | 0.284854 |
MA0145.1 | 0.478485 |
MA0146.1 | 1.33403 |
MA0147.1 | 0.0991954 |
MA0148.1 | 0.276339 |
MA0149.1 | 0.298252 |
MA0062.2 | 0.0512998 |
MA0035.2 | 0.305721 |
MA0039.2 | 0.530814 |
MA0138.2 | 0.425279 |
MA0002.2 | 1.75425 |
MA0137.2 | 0.153033 |
MA0104.2 | 0.0667907 |
MA0047.2 | 0.366327 |
MA0112.2 | 1.33111 |
MA0065.2 | 1.06382 |
MA0150.1 | 0.201098 |
MA0151.1 | 0 |
MA0152.1 | 0.311809 |
MA0153.1 | 0.763487 |
MA0154.1 | 1.26909 |
MA0155.1 | 2.06149 |
MA0156.1 | 0.154615 |
MA0157.1 | 0.46471 |
MA0158.1 | 0 |
MA0159.1 | 0.671959 |
MA0160.1 | 0.288813 |
MA0161.1 | 0 |
MA0162.1 | 2.33131 |
MA0163.1 | 0.765815 |
MA0164.1 | 1.03839 |
MA0080.2 | 0.139746 |
MA0018.2 | 0.378086 |
MA0099.2 | 0.312108 |
MA0079.2 | 0.949531 |
MA0102.2 | 1.1957 |
MA0258.1 | 0.27007 |
MA0259.1 | 0.340204 |
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.