Coexpression cluster:C1631
From FANTOM5_SSTAR
Full id: C1631_Monocytederived_Melanocyte_CD14_Macrophage_Mast_Mesenchymal_Fibroblast
Phase1 CAGE Peaks
Hg19::chr11:2920913..2920942,+ | p4@SLC22A18 |
Hg19::chr11:844067..844158,+ | p2@TSPAN4 |
Hg19::chr15:72668805..72668860,- | p4@HEXA |
Hg19::chr18:74845649..74845670,- | p10@MBP |
Hg19::chr18:74845672..74845681,- | p42@MBP |
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:0007272 | ensheathment of neurons | 0.000345141160614551 |
GO:0008366 | axon ensheathment | 0.000345141160614551 |
GO:0001508 | regulation of action potential | 0.000361727870421891 |
GO:0043209 | myelin sheath | 0.00716883192883501 |
GO:0003008 | system process | 0.00716883192883501 |
GO:0050884 | neuromuscular process controlling posture | 0.00716883192883501 |
GO:0004563 | beta-N-acetylhexosaminidase activity | 0.00716883192883501 |
GO:0006689 | ganglioside catabolic process | 0.00716883192883501 |
GO:0019226 | transmission of nerve impulse | 0.00716883192883501 |
GO:0046479 | glycosphingolipid catabolic process | 0.00716883192883501 |
GO:0019377 | glycolipid catabolic process | 0.00716883192883501 |
GO:0019915 | sequestering of lipid | 0.00716883192883501 |
GO:0001573 | ganglioside metabolic process | 0.00716883192883501 |
GO:0007628 | adult walking behavior | 0.00716883192883501 |
GO:0015904 | tetracycline transport | 0.00716883192883501 |
GO:0015520 | tetracycline:hydrogen antiporter activity | 0.00716883192883501 |
GO:0015307 | drug:hydrogen antiporter activity | 0.00716883192883501 |
GO:0044459 | plasma membrane part | 0.00716883192883501 |
GO:0015101 | organic cation transmembrane transporter activity | 0.00716883192883501 |
GO:0042895 | antibiotic transporter activity | 0.00716883192883501 |
GO:0046677 | response to antibiotic | 0.00716883192883501 |
GO:0008493 | tetracycline transporter activity | 0.00716883192883501 |
GO:0019911 | structural constituent of myelin sheath | 0.00754252487059236 |
GO:0008344 | adult locomotory behavior | 0.00919837608377269 |
GO:0030149 | sphingolipid catabolic process | 0.00946076904077037 |
GO:0015929 | hexosaminidase activity | 0.00978570597354006 |
GO:0015893 | drug transport | 0.00978570597354006 |
GO:0007267 | cell-cell signaling | 0.00978570597354006 |
GO:0050885 | neuromuscular process controlling balance | 0.00978570597354006 |
GO:0006687 | glycosphingolipid metabolic process | 0.00998460349909566 |
GO:0007040 | lysosome organization and biogenesis | 0.0101706240274497 |
GO:0007399 | nervous system development | 0.0101996367455477 |
GO:0007033 | vacuole organization and biogenesis | 0.0101996367455477 |
GO:0015238 | drug transporter activity | 0.0101996367455477 |
GO:0050905 | neuromuscular process | 0.0103581346894914 |
GO:0046466 | membrane lipid catabolic process | 0.0105077885383775 |
GO:0042552 | myelination | 0.0109104886857533 |
GO:0015299 | solute:hydrogen antiporter activity | 0.0109104886857533 |
GO:0030534 | adult behavior | 0.0109104886857533 |
GO:0006664 | glycolipid metabolic process | 0.0114246970871211 |
GO:0006672 | ceramide metabolic process | 0.0122974558044596 |
GO:0046519 | sphingoid metabolic process | 0.0131283565550644 |
GO:0065008 | regulation of biological quality | 0.0141560905259556 |
GO:0007588 | excretion | 0.0150332874311201 |
GO:0005886 | plasma membrane | 0.0151829793304564 |
GO:0032501 | multicellular organismal process | 0.0151829793304564 |
GO:0015298 | solute:cation antiporter activity | 0.0154113469493529 |
GO:0044242 | cellular lipid catabolic process | 0.0157428993076182 |
GO:0030203 | glycosaminoglycan metabolic process | 0.0157428993076182 |
GO:0006022 | aminoglycan metabolic process | 0.0157428993076182 |
GO:0015300 | solute:solute antiporter activity | 0.0157428993076182 |
GO:0016020 | membrane | 0.0174546116642479 |
GO:0042493 | response to drug | 0.0187033419075893 |
GO:0050877 | neurological system process | 0.0191020292066077 |
GO:0016324 | apical plasma membrane | 0.0191020292066077 |
GO:0006665 | sphingolipid metabolic process | 0.0191020292066077 |
GO:0045177 | apical part of cell | 0.0237157522220542 |
GO:0015297 | antiporter activity | 0.0246564633342525 |
GO:0046982 | protein heterodimerization activity | 0.0279502739579866 |
GO:0048731 | system development | 0.028044494614052 |
GO:0050954 | sensory perception of mechanical stimulus | 0.0333974226952198 |
GO:0007605 | sensory perception of sound | 0.0333974226952198 |
GO:0016042 | lipid catabolic process | 0.0363307499073583 |
GO:0048856 | anatomical structure development | 0.0403753673555447 |
GO:0007626 | locomotory behavior | 0.0435868571927119 |
GO:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | 0.045042994673342 |
GO:0005764 | lysosome | 0.0464547052074452 |
GO:0000323 | lytic vacuole | 0.0464547052074452 |
GO:0001501 | skeletal development | 0.0473532810576143 |
GO:0007275 | multicellular organismal development | 0.0479593152336682 |
GO:0016798 | hydrolase activity, acting on glycosyl bonds | 0.0484179111847522 |
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 |
---|---|---|
granulocyte monocyte progenitor cell | 1.67e-55 | 67 |
myeloid lineage restricted progenitor cell | 9.80e-55 | 66 |
monopoietic cell | 3.02e-52 | 59 |
monocyte | 3.02e-52 | 59 |
monoblast | 3.02e-52 | 59 |
promonocyte | 3.02e-52 | 59 |
myeloid leukocyte | 1.74e-51 | 72 |
macrophage dendritic cell progenitor | 8.89e-50 | 61 |
defensive cell | 3.35e-43 | 48 |
phagocyte | 3.35e-43 | 48 |
myeloid cell | 5.36e-42 | 108 |
common myeloid progenitor | 5.36e-42 | 108 |
stuff accumulating cell | 4.05e-38 | 87 |
classical monocyte | 3.96e-36 | 42 |
CD14-positive, CD16-negative classical monocyte | 3.96e-36 | 42 |
hematopoietic stem cell | 1.84e-22 | 168 |
angioblastic mesenchymal cell | 1.84e-22 | 168 |
hematopoietic lineage restricted progenitor cell | 3.79e-21 | 120 |
leukocyte | 9.36e-21 | 136 |
hematopoietic oligopotent progenitor cell | 1.26e-20 | 161 |
hematopoietic multipotent progenitor cell | 1.26e-20 | 161 |
nongranular leukocyte | 1.90e-20 | 115 |
hematopoietic cell | 6.33e-20 | 177 |
motile cell | 1.04e-10 | 386 |
mesenchymal cell | 1.59e-10 | 354 |
connective tissue cell | 9.91e-10 | 361 |
macrophage | 1.70e-08 | 6 |
Ontology term | p-value | n |
---|---|---|
bone marrow | 6.18e-51 | 76 |
hematopoietic system | 4.90e-47 | 98 |
blood island | 4.90e-47 | 98 |
immune system | 3.58e-46 | 93 |
bone element | 2.68e-45 | 82 |
hemolymphoid system | 1.05e-43 | 108 |
skeletal element | 5.52e-39 | 90 |
skeletal system | 1.14e-34 | 100 |
lateral plate mesoderm | 1.56e-23 | 203 |
musculoskeletal system | 9.14e-18 | 167 |
mesoderm | 4.87e-16 | 315 |
mesoderm-derived structure | 4.87e-16 | 315 |
presumptive mesoderm | 4.87e-16 | 315 |
connective tissue | 1.49e-09 | 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) |
---|---|
MA0003.1 | 0.136928 |
MA0004.1 | 0.626788 |
MA0006.1 | 0.452993 |
MA0007.1 | 0.606704 |
MA0009.1 | 1.11255 |
MA0014.1 | 0.161847 |
MA0017.1 | 0.496101 |
MA0019.1 | 0.784036 |
MA0024.1 | 1.00439 |
MA0025.1 | 1.24931 |
MA0027.1 | 2.73598 |
MA0028.1 | 0.470679 |
MA0029.1 | 1.02437 |
MA0030.1 | 1.01252 |
MA0031.1 | 0.945567 |
MA0038.1 | 0.736268 |
MA0040.1 | 1.03042 |
MA0041.1 | 0.64667 |
MA0042.1 | 0.612397 |
MA0043.1 | 1.11288 |
MA0046.1 | 1.10134 |
MA0048.1 | 0.195817 |
MA0050.1 | 0.613347 |
MA0051.1 | 0.731787 |
MA0052.1 | 1.03442 |
MA0055.1 | 0.603517 |
MA0056.1 | 0 |
MA0057.1 | 0.554727 |
MA0058.1 | 1.29981 |
MA0059.1 | 1.29682 |
MA0060.1 | 0.321781 |
MA0061.1 | 0.291022 |
MA0063.1 | 0 |
MA0066.1 | 0.736721 |
MA0067.1 | 1.43651 |
MA0068.1 | 0.247962 |
MA0069.1 | 1.09737 |
MA0070.1 | 1.08584 |
MA0071.1 | 0.695094 |
MA0072.1 | 1.0812 |
MA0073.1 | 0.551452 |
MA0074.1 | 0.730989 |
MA0076.1 | 1.33654 |
MA0077.1 | 1.07324 |
MA0078.1 | 0.836493 |
MA0081.1 | 0.522409 |
MA0083.1 | 1.12028 |
MA0084.1 | 1.62584 |
MA0087.1 | 1.07867 |
MA0088.1 | 0.132006 |
MA0089.1 | 0 |
MA0090.1 | 0.556637 |
MA0091.1 | 0.629594 |
MA0092.1 | 0.588959 |
MA0093.1 | 1.15584 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 1.77562 |
MA0101.1 | 0.459973 |
MA0103.1 | 0.442769 |
MA0105.1 | 0.520776 |
MA0106.1 | 0.779931 |
MA0107.1 | 0.985964 |
MA0108.2 | 0.94238 |
MA0109.1 | 0 |
MA0111.1 | 1.40074 |
MA0113.1 | 0.797251 |
MA0114.1 | 0.372523 |
MA0115.1 | 1.35895 |
MA0116.1 | 0.382106 |
MA0117.1 | 1.1512 |
MA0119.1 | 0.504689 |
MA0122.1 | 1.17777 |
MA0124.1 | 1.31673 |
MA0125.1 | 1.23103 |
MA0130.1 | 0 |
MA0131.1 | 0.855546 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 1.14377 |
MA0136.1 | 0.743749 |
MA0139.1 | 0.277033 |
MA0140.1 | 0.692258 |
MA0141.1 | 0.520334 |
MA0142.1 | 0.912455 |
MA0143.1 | 0.797437 |
MA0144.1 | 0.356507 |
MA0145.1 | 1.39943 |
MA0146.1 | 0.143081 |
MA0147.1 | 0.386018 |
MA0148.1 | 0.653474 |
MA0149.1 | 0.681935 |
MA0062.2 | 0.777733 |
MA0035.2 | 0.691506 |
MA0039.2 | 0.15493 |
MA0138.2 | 1.95446 |
MA0002.2 | 0.30855 |
MA0137.2 | 0.47779 |
MA0104.2 | 0.858845 |
MA0047.2 | 0.767096 |
MA0112.2 | 0.425004 |
MA0065.2 | 1.41695 |
MA0150.1 | 0.550239 |
MA0151.1 | 0 |
MA0152.1 | 0.69926 |
MA0153.1 | 1.21379 |
MA0154.1 | 0.172764 |
MA0155.1 | 0.813062 |
MA0156.1 | 1.20729 |
MA0157.1 | 0.883854 |
MA0158.1 | 0 |
MA0159.1 | 0.386729 |
MA0160.1 | 0.669748 |
MA0161.1 | 0 |
MA0162.1 | 0.0592265 |
MA0163.1 | 1.49262 |
MA0164.1 | 0.810347 |
MA0080.2 | 2.01584 |
MA0018.2 | 0.781393 |
MA0099.2 | 0.699641 |
MA0079.2 | 0.823998 |
MA0102.2 | 1.66336 |
MA0258.1 | 0.345771 |
MA0259.1 | 0.395396 |
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
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
TF | #promoters | Enrichment | p-value | q-value |
---|---|---|---|---|
REST#5978 | 3 | 5.79001722967681 | 0.00946878869443394 | 0.0356878680064232 |
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.