MCL coexpression mm9:214: Difference between revisions
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{{MCL_coexpression_mm9 | 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space;0.00243650974348995;242316,20378,21789,100689,18787,16193,240725!GO:0044421;extracellular region part;0.00243650974348995;242316,20378,21789,100689,18787,16193,240725!GO:0045630;positive regulation of T-helper 2 cell differentiation;0.0239546784204334;16193!GO:0045624;positive regulation of T-helper cell differentiation;0.0239546784204334;16193!GO:0042832;defense response to protozoan;0.0239546784204334;16193!GO:0004958;prostaglandin F receptor activity;0.0239546784204334;19220!GO:0001781;neutrophil apoptosis;0.0239546784204334;16193!GO:0045079;negative regulation of chemokine biosynthetic process;0.0239546784204334;16193!GO:0004867;serine-type endopeptidase inhibitor activity;0.0239546784204334;21789,18787!GO:0005138;interleukin-6 receptor binding;0.0239546784204334;16193!GO:0045628;regulation of T-helper 2 cell differentiation;0.0239546784204334;16193!GO:0001562;response to protozoan;0.0239546784204334;16193!GO:0008449;N-acetylglucosamine-6-sulfatase activity;0.0239546784204334;240725!GO:0004065;arylsulfatase activity;0.0239546784204334;240725!GO:0045064;T-helper 2 cell differentiation;0.0239546784204334;16193!GO:0008243;plasminogen activator activity;0.0239546784204334;18787!GO:0045622;regulation of T-helper cell differentiation;0.0239546784204334;16193!GO:0001780;neutrophil homeostasis;0.0239546784204334;16193!GO:0017147;Wnt-protein binding;0.0239546784204334;20378!GO:0004866;endopeptidase inhibitor activity;0.0239546784204334;21789,18787!GO:0004960;thromboxane receptor activity;0.0239546784204334;19220!GO:0030414;protease inhibitor activity;0.0239546784204334;21789,18787!GO:0008083;growth factor activity;0.0239546784204334;242316,16193!GO:0042092;T-helper 2 type immune response;0.0239546784204334;16193!GO:0004720;protein-lysine 6-oxidase activity;0.0239546784204334;94352!GO:0004955;prostaglandin receptor activity;0.0239546784204334;19220!GO:0045073;regulation of chemokine biosynthetic process;0.0239546784204334;16193!GO:0050755;chemokine metabolic process;0.0239546784204334;16193!GO:0042033;chemokine biosynthetic process;0.0239546784204334;16193!GO:0002294;CD4-positive, alpha-beta T cell differentiation during immune response;0.0239546784204334;16193!GO:0002292;T cell differentiation during immune response;0.0239546784204334;16193!GO:0042093;T-helper cell differentiation;0.0239546784204334;16193!GO:0032602;chemokine production;0.0239546784204334;16193!GO:0002262;myeloid cell homeostasis;0.0239546784204334;16193!GO:0002285;lymphocyte activation during immune response;0.0239546784204334;16193!GO:0046888;negative regulation of hormone secretion;0.0239546784204334;16193!GO:0002293;alpha-beta T cell differentiation during immune response;0.0239546784204334;16193!GO:0002286;T cell activation during immune response;0.0239546784204334;16193!GO:0002366;leukocyte activation during immune response;0.025659401062084;16193!GO:0002263;cell activation during immune response;0.025659401062084;16193!GO:0004857;enzyme inhibitor activity;0.026024860819726;21789,18787!GO:0004953;icosanoid receptor activity;0.026024860819726;19220!GO:0042036;negative regulation of cytokine biosynthetic process;0.026024860819726;16193!GO:0004954;prostanoid receptor activity;0.026024860819726;19220!GO:0005125;cytokine activity;0.0268680290197964;242316,16193!GO:0043367;CD4-positive, alpha beta T cell differentiation;0.0268680290197964;16193!GO:0008484;sulfuric ester hydrolase activity;0.0268680290197964;240725!GO:0051048;negative regulation of secretion;0.028717286864771;16193!GO:0016641;oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor;0.0367807599016832;94352!GO:0030178;negative regulation of Wnt receptor signaling pathway;0.0367807599016832;20378!GO:0009611;response to wounding;0.0424314752723387;21789,16193!GO:0046883;regulation of hormone secretion;0.0426872913025232;16193!GO:0016638;oxidoreductase activity, acting on the CH-NH2 group of donors;0.0426872913025232;94352!GO:0032502;developmental process;0.0426872913025232;20378,100689,18787,16193,240725!GO:0046632;alpha-beta T cell differentiation;0.043985899283045;16193!GO:0030111;regulation of Wnt receptor signaling 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| |||
| | |||
}} |
Latest revision as of 14:54, 17 September 2013
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
GO ID | GO name | FDR corrected p-value |
---|---|---|
GO:0005615 | extracellular space | 0.00243650974348995 |
GO:0044421 | extracellular region part | 0.00243650974348995 |
GO:0045630 | positive regulation of T-helper 2 cell differentiation | 0.0239546784204334 |
GO:0045624 | positive regulation of T-helper cell differentiation | 0.0239546784204334 |
GO:0042832 | defense response to protozoan | 0.0239546784204334 |
GO:0004958 | prostaglandin F receptor activity | 0.0239546784204334 |
GO:0001781 | neutrophil apoptosis | 0.0239546784204334 |
GO:0045079 | negative regulation of chemokine biosynthetic process | 0.0239546784204334 |
GO:0004867 | serine-type endopeptidase inhibitor activity | 0.0239546784204334 |
GO:0005138 | interleukin-6 receptor binding | 0.0239546784204334 |
GO:0045628 | regulation of T-helper 2 cell differentiation | 0.0239546784204334 |
GO:0001562 | response to protozoan | 0.0239546784204334 |
GO:0008449 | N-acetylglucosamine-6-sulfatase activity | 0.0239546784204334 |
GO:0004065 | arylsulfatase activity | 0.0239546784204334 |
GO:0045064 | T-helper 2 cell differentiation | 0.0239546784204334 |
GO:0008243 | plasminogen activator activity | 0.0239546784204334 |
GO:0045622 | regulation of T-helper cell differentiation | 0.0239546784204334 |
GO:0001780 | neutrophil homeostasis | 0.0239546784204334 |
GO:0017147 | Wnt-protein binding | 0.0239546784204334 |
GO:0004866 | endopeptidase inhibitor activity | 0.0239546784204334 |
GO:0004960 | thromboxane receptor activity | 0.0239546784204334 |
GO:0030414 | protease inhibitor activity | 0.0239546784204334 |
GO:0008083 | growth factor activity | 0.0239546784204334 |
GO:0042092 | T-helper 2 type immune response | 0.0239546784204334 |
GO:0004720 | protein-lysine 6-oxidase activity | 0.0239546784204334 |
GO:0004955 | prostaglandin receptor activity | 0.0239546784204334 |
GO:0045073 | regulation of chemokine biosynthetic process | 0.0239546784204334 |
GO:0050755 | chemokine metabolic process | 0.0239546784204334 |
GO:0042033 | chemokine biosynthetic process | 0.0239546784204334 |
GO:0002294 | CD4-positive, alpha-beta T cell differentiation during immune response | 0.0239546784204334 |
GO:0002292 | T cell differentiation during immune response | 0.0239546784204334 |
GO:0042093 | T-helper cell differentiation | 0.0239546784204334 |
GO:0032602 | chemokine production | 0.0239546784204334 |
GO:0002262 | myeloid cell homeostasis | 0.0239546784204334 |
GO:0002285 | lymphocyte activation during immune response | 0.0239546784204334 |
GO:0046888 | negative regulation of hormone secretion | 0.0239546784204334 |
GO:0002293 | alpha-beta T cell differentiation during immune response | 0.0239546784204334 |
GO:0002286 | T cell activation during immune response | 0.0239546784204334 |
GO:0002366 | leukocyte activation during immune response | 0.025659401062084 |
GO:0002263 | cell activation during immune response | 0.025659401062084 |
GO:0004857 | enzyme inhibitor activity | 0.026024860819726 |
GO:0004953 | icosanoid receptor activity | 0.026024860819726 |
GO:0042036 | negative regulation of cytokine biosynthetic process | 0.026024860819726 |
GO:0004954 | prostanoid receptor activity | 0.026024860819726 |
GO:0005125 | cytokine activity | 0.0268680290197964 |
GO:0043367 | CD4-positive, alpha beta T cell differentiation | 0.0268680290197964 |
GO:0008484 | sulfuric ester hydrolase activity | 0.0268680290197964 |
GO:0051048 | negative regulation of secretion | 0.028717286864771 |
GO:0016641 | oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor | 0.0367807599016832 |
GO:0030178 | negative regulation of Wnt receptor signaling pathway | 0.0367807599016832 |
GO:0009611 | response to wounding | 0.0424314752723387 |
GO:0046883 | regulation of hormone secretion | 0.0426872913025232 |
GO:0016638 | oxidoreductase activity, acting on the CH-NH2 group of donors | 0.0426872913025232 |
GO:0032502 | developmental process | 0.0426872913025232 |
GO:0046632 | alpha-beta T cell differentiation | 0.043985899283045 |
GO:0030111 | regulation of Wnt receptor signaling pathway | 0.0452748201664485 |
Relative expression of the co-expression cluster over median <br>Analyst:
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 |
---|---|---|
muscle precursor cell | 7.49e-13 | 6 |
contractile cell | 7.49e-13 | 6 |
muscle cell | 7.49e-13 | 6 |
myoblast | 7.49e-13 | 6 |
mesodermal cell | 7.31e-11 | 7 |
multi-potent skeletal muscle stem cell | 3.27e-08 | 9 |
cardiocyte | 2.31e-07 | 3 |
striated muscle cell | 2.31e-07 | 3 |
cardiac muscle cell | 2.31e-07 | 3 |
cardiac muscle myoblast | 2.31e-07 | 3 |
smooth muscle cell | 4.33e-07 | 3 |
vascular associated smooth muscle cell | 4.33e-07 | 3 |
aortic smooth muscle cell | 4.33e-07 | 3 |
smooth muscle myoblast | 4.33e-07 | 3 |
TFBS overrepresentation<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 | 0.00452626 |
MA0004.1 | 0.159436 |
MA0006.1 | 0.00787508 |
MA0007.1 | 1.36873 |
MA0009.1 | 0.2736 |
MA0014.1 | 0.000851717 |
MA0017.1 | 1.45844 |
MA0019.1 | 0.154706 |
MA0024.1 | 0.242791 |
MA0025.1 | 0.455779 |
MA0027.1 | 1.80018 |
MA0028.1 | 0.045906 |
MA0029.1 | 0.646159 |
MA0030.1 | 0.232422 |
MA0031.1 | 0.208749 |
MA0038.1 | 0.0965212 |
MA0040.1 | 0.282638 |
MA0041.1 | 0.022104 |
MA0042.1 | 0.0868452 |
MA0043.1 | 0.345831 |
MA0046.1 | 0.299802 |
MA0048.1 | 0.691982 |
MA0050.1 | 0.0534976 |
MA0051.1 | 0.330748 |
MA0052.1 | 0.28851 |
MA0055.1 | 0.677697 |
MA0056.1 | 0 |
MA0057.1 | 0.440857 |
MA0058.1 | 0.082221 |
MA0059.1 | 0.0205732 |
MA0060.1 | 0.00221333 |
MA0061.1 | 0.155537 |
MA0063.1 | 0 |
MA0066.1 | 0.0914583 |
MA0067.1 | 0.55053 |
MA0068.1 | 0.632964 |
MA0069.1 | 0.288758 |
MA0070.1 | 1.40723 |
MA0071.1 | 1.16588 |
MA0072.1 | 0.756267 |
MA0073.1 | 0.104524 |
MA0074.1 | 0.0758687 |
MA0076.1 | 0.0647577 |
MA0077.1 | 0.720829 |
MA0078.1 | 0.373808 |
MA0081.1 | 0.262387 |
MA0083.1 | 0.345218 |
MA0084.1 | 0.848546 |
MA0087.1 | 0.31239 |
MA0088.1 | 0.454096 |
MA0089.1 | 0 |
MA0090.1 | 0.128896 |
MA0091.1 | 1.06681 |
MA0092.1 | 1.27528 |
MA0093.1 | 0.0500003 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.249262 |
MA0101.1 | 0.736742 |
MA0103.1 | 0.059973 |
MA0105.1 | 0.0830513 |
MA0106.1 | 0.121061 |
MA0107.1 | 0.52202 |
MA0108.2 | 0.970682 |
MA0109.1 | 0 |
MA0111.1 | 0.597107 |
MA0113.1 | 1.706 |
MA0114.1 | 0.947852 |
MA0115.1 | 0.347998 |
MA0116.1 | 0.0409567 |
MA0117.1 | 0.32327 |
MA0119.1 | 2.43249 |
MA0122.1 | 0.338415 |
MA0124.1 | 0.504623 |
MA0125.1 | 0.442316 |
MA0130.1 | 0 |
MA0131.1 | 0.15209 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.374324 |
MA0136.1 | 0.598759 |
MA0139.1 | 0.152204 |
MA0140.1 | 0.532182 |
MA0141.1 | 0.90729 |
MA0142.1 | 0.578416 |
MA0143.1 | 0.11498 |
MA0144.1 | 0.289545 |
MA0145.1 | 0.267045 |
MA0146.1 | 0.0360613 |
MA0147.1 | 0.0262681 |
MA0148.1 | 0.174974 |
MA0149.1 | 0.756463 |
MA0062.2 | 0.0147379 |
MA0035.2 | 1.38326 |
MA0039.2 | 0.0317568 |
MA0138.2 | 0.451709 |
MA0002.2 | 0.430714 |
MA0137.2 | 0.358188 |
MA0104.2 | 0.0111267 |
MA0047.2 | 0.0961637 |
MA0112.2 | 1.57172 |
MA0065.2 | 0.68681 |
MA0150.1 | 0.610788 |
MA0151.1 | 0 |
MA0152.1 | 1.09142 |
MA0153.1 | 0.387546 |
MA0154.1 | 0.49873 |
MA0155.1 | 0.0198844 |
MA0156.1 | 0.565968 |
MA0157.1 | 0.529902 |
MA0158.1 | 0 |
MA0159.1 | 0.3485 |
MA0160.1 | 0.177926 |
MA0161.1 | 0 |
MA0162.1 | 0.0930166 |
MA0163.1 | 0.16146 |
MA0164.1 | 1.00809 |
MA0080.2 | 0.797086 |
MA0018.2 | 0.0887809 |
MA0099.2 | 1.4013 |
MA0079.2 | 0.794238 |
MA0102.2 | 0.897953 |
MA0258.1 | 2.24733 |
MA0259.1 | 0.00389754 |
MA0442.1 | 0 |