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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_mean=0.

Latest revision as of 15:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:33847803..33847820,-p2@Fam26f
Mm9::chr13:52692289..52692308,+p6@Syk
Mm9::chr13:52692323..52692334,+p11@Syk
Mm9::chr16:4726284..4726290,+p6@Hmox2
Mm9::chr17:5195701..5195737,+p@chr17:5195701..5195737
+
Mm9::chr19:41406810..41406843,-p@chr19:41406810..41406843
-
Mm9::chr19:41406848..41406866,-p@chr19:41406848..41406866
-
Mm9::chr19:41406924..41406948,-p@chr19:41406924..41406948
-
Mm9::chr1:34530108..34530141,+p@chr1:34530108..34530141
+
Mm9::chr2:103810335..103810349,+p10@Lmo2
Mm9::chr4:43467409..43467419,-p3@Cd72
p3@LOC100504743
Mm9::chr5:135083184..135083189,-p@chr5:135083184..135083189
-
Mm9::chr9:55937976..55937991,+p10@Pstpip1
Mm9::chr9:55938017..55938045,+p4@Pstpip1


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 IDGO nameFDR corrected p-value
GO:0005057receptor signaling protein activity0.0158186854101761
GO:0046645positive regulation of gamma-delta T cell activation0.0158186854101761
GO:0045586regulation of gamma-delta T cell differentiation0.0158186854101761
GO:0045588positive regulation of gamma-delta T cell differentiation0.0158186854101761
GO:0046643regulation of gamma-delta T cell activation0.0158186854101761
GO:0043366beta selection0.0158186854101761
GO:0004392heme oxygenase (decyclizing) activity0.0158186854101761
GO:0046629gamma-delta T cell activation0.0158186854101761
GO:0006788heme oxidation0.0158186854101761
GO:0042492gamma-delta T cell differentiation0.0158186854101761
GO:0032632interleukin-3 production0.0158186854101761
GO:0045423regulation of granulocyte macrophage colony-stimulating factor biosynthetic process0.0158186854101761
GO:0042223interleukin-3 biosynthetic process0.0158186854101761
GO:0046638positive regulation of alpha-beta T cell differentiation0.0158186854101761
GO:0045399regulation of interleukin-3 biosynthetic process0.0158186854101761
GO:0032604granulocyte macrophage colony-stimulating factor production0.0158186854101761
GO:0045425positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process0.0158186854101761
GO:0006787porphyrin catabolic process0.0158186854101761
GO:0045401positive regulation of interleukin-3 biosynthetic process0.0158186854101761
GO:0042253granulocyte macrophage colony-stimulating factor biosynthetic process0.0158186854101761
GO:0033015tetrapyrrole catabolic process0.0158186854101761
GO:0043306positive regulation of mast cell degranulation0.0158186854101761
GO:0045647negative regulation of erythrocyte differentiation0.0158186854101761
GO:0046637regulation of alpha-beta T cell differentiation0.0158186854101761
GO:0043304regulation of mast cell degranulation0.0158186854101761
GO:0001820serotonin secretion0.0158186854101761
GO:0005826contractile ring0.0158186854101761
GO:0043302positive regulation of leukocyte degranulation0.0158186854101761
GO:0019903protein phosphatase binding0.0172993173979733
GO:0004716receptor signaling protein tyrosine kinase activity0.0172993173979733
GO:0043300regulation of leukocyte degranulation0.0172993173979733
GO:0045579positive regulation of B cell differentiation0.0172993173979733
GO:0030097hemopoiesis0.0179514270874
GO:0032153cell division site0.0179514270874
GO:0045921positive regulation of exocytosis0.0179514270874
GO:0019815B cell receptor complex0.0179514270874
GO:0032155cell division site part0.0179514270874
GO:0050853B cell receptor signaling pathway0.0182841233001697
GO:0043303mast cell degranulation0.0182841233001697
GO:0002448mast cell mediated immunity0.0182841233001697
GO:0019902phosphatase binding0.0182841233001697
GO:0046641positive regulation of alpha-beta T cell proliferation0.0182841233001697
GO:0048534hemopoietic or lymphoid organ development0.0182841233001697
GO:0005066transmembrane receptor protein tyrosine kinase signaling protein activity0.0196449609177903
GO:0046635positive regulation of alpha-beta T cell activation0.0196449609177903
GO:0002520immune system development0.0196449609177903
GO:0042101T cell receptor complex0.0199178977336042
GO:0046640regulation of alpha-beta T cell proliferation0.0199178977336042
GO:0045577regulation of B cell differentiation0.0199178977336042
GO:0045646regulation of erythrocyte differentiation0.0199178977336042
GO:0043299leukocyte degranulation0.0212768907620563
GO:0007257activation of JNK activity0.0212768907620563
GO:0046634regulation of alpha-beta T cell activation0.0225346567785881
GO:0043507positive regulation of JNK activity0.0225346567785881
GO:0045576mast cell activation0.023286216360908
GO:0045582positive regulation of T cell differentiation0.023286216360908
GO:0046633alpha-beta T cell proliferation0.023286216360908
GO:0050850positive regulation of calcium-mediated signaling0.0239621154308482
GO:0050848regulation of calcium-mediated signaling0.0239621154308482
GO:0019814immunoglobulin complex0.0239621154308482
GO:0045621positive regulation of lymphocyte differentiation0.026324782844713
GO:0043506regulation of JNK activity0.026324782844713
GO:0002444myeloid leukocyte mediated immunity0.026324782844713
GO:0019370leukotriene biosynthetic process0.0267997444330044
GO:0043450alkene biosynthetic process0.0267997444330044
GO:0042168heme metabolic process0.0267997444330044
GO:0045058T cell selection0.0272329666556482
GO:0006691leukotriene metabolic process0.0272329666556482
GO:0045580regulation of T cell differentiation0.0272329666556482
GO:0033013tetrapyrrole metabolic process0.0272511784361059
GO:0006778porphyrin metabolic process0.0272511784361059
GO:0043449alkene metabolic process0.0272511784361059
GO:0017157regulation of exocytosis0.0272511784361059
GO:0001725stress fiber0.0279942282533293
GO:0045638negative regulation of myeloid cell differentiation0.0279942282533293
GO:0032432actin filament bundle0.0286982855242072
GO:0001772immunological synapse0.0286982855242072
GO:0019722calcium-mediated signaling0.0289992328944968
GO:0046632alpha-beta T cell differentiation0.0289992328944968
GO:0050731positive regulation of peptidyl-tyrosine phosphorylation0.0289992328944968
GO:0045937positive regulation of phosphate metabolic process0.0296351105392341
GO:0042327positive regulation of phosphorylation0.0296351105392341
GO:0045619regulation of lymphocyte differentiation0.0306046902405463
GO:0046456icosanoid biosynthetic process0.0315508251837164
GO:0000910cytokinesis0.0323948723522591
GO:0050871positive regulation of B cell activation0.0323948723522591
GO:0001934positive regulation of protein amino acid phosphorylation0.0323948723522591
GO:0002274myeloid leukocyte activation0.0323948723522591
GO:0033240positive regulation of amine metabolic process0.0323948723522591
GO:0045764positive regulation of amino acid metabolic process0.0323948723522591
GO:0050851antigen receptor-mediated signaling pathway0.0323948723522591
GO:0042102positive regulation of T cell proliferation0.0323948723522591
GO:0044448cell cortex part0.0332288983549147
GO:0006690icosanoid metabolic process0.0352139960995021
GO:0046631alpha-beta T cell activation0.0356248379410609
GO:0042440pigment metabolic process0.0356248379410609
GO:0002429immune response-activating cell surface receptor signaling pathway0.0356547788286215
GO:0051187cofactor catabolic process0.0356547788286215
GO:0042108positive regulation of cytokine biosynthetic process0.0356547788286215
GO:0046777protein amino acid autophosphorylation0.0360359566836278
GO:0051050positive regulation of transport0.0360359566836278
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.0360806946379755
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0360806946379755
GO:0045637regulation of myeloid cell differentiation0.0360806946379755
GO:0030183B cell differentiation0.0360806946379755
GO:0016540protein autoprocessing0.0360806946379755
GO:0000187activation of MAPK activity0.0360806946379755
GO:0032946positive regulation of mononuclear cell proliferation0.0360806946379755
GO:0002757immune response-activating signal transduction0.0360806946379755
GO:0050671positive regulation of lymphocyte proliferation0.0360806946379755
GO:0030218erythrocyte differentiation0.0364157538806666
GO:0050864regulation of B cell activation0.0364157538806666
GO:0004715non-membrane spanning protein tyrosine kinase activity0.0367387925569082
GO:0002764immune response-regulating signal transduction0.0367387925569082
GO:0045727positive regulation of translation0.0383256338158725
GO:0043406positive regulation of MAP kinase activity0.0389397889873295
GO:0042129regulation of T cell proliferation0.0391409963062286
GO:0031328positive regulation of cellular biosynthetic process0.0391409963062286
GO:0050870positive regulation of T cell activation0.0391409963062286
GO:0007254JNK cascade0.0391409963062286
GO:0019748secondary metabolic process0.0391409963062286
GO:0031098stress-activated protein kinase signaling pathway0.041511496768158
GO:0005938cell cortex0.0420633321261785
GO:0042035regulation of cytokine biosynthetic process0.0443691239202558
GO:0033238regulation of amine metabolic process0.0448421745003913
GO:0001932regulation of protein amino acid phosphorylation0.0448421745003913
GO:0006521regulation of amino acid metabolic process0.0448421745003913
GO:0032944regulation of mononuclear cell proliferation0.0448421745003913
GO:0009891positive regulation of biosynthetic process0.0448421745003913
GO:0050670regulation of lymphocyte proliferation0.0448421745003913
GO:0005886plasma membrane0.0449410509959089
GO:0042098T cell proliferation0.0449410509959089
GO:0042325regulation of phosphorylation0.0449410509959089
GO:0051174regulation of phosphorus metabolic process0.0449410509959089
GO:0019220regulation of phosphate metabolic process0.0449410509959089
GO:0018212peptidyl-tyrosine modification0.0449410509959089
GO:0018108peptidyl-tyrosine phosphorylation0.0449410509959089
GO:0042089cytokine biosynthetic process0.0471976051634346
GO:0043405regulation of MAP kinase activity0.0471976051634346
GO:0042107cytokine metabolic process0.0471976051634346
GO:0051251positive regulation of lymphocyte activation0.0471976051634346
GO:0030217T cell differentiation0.0471976051634346
GO:0050863regulation of T cell activation0.0483909414071186
GO:0045055regulated secretory pathway0.0484781921249234
GO:0002376immune system process0.0484781921249234
GO:0009967positive regulation of signal transduction0.0488878737328907
GO:0046483heterocycle metabolic process0.0489624807382904
GO:0016485protein processing0.0489624807382904



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>

Uber Anatomy
Ontology termp-valuen
hemolymphoid system3.03e-2248
immune system3.03e-2248
hematopoietic system5.58e-2045
blood island5.58e-2045
bone marrow8.15e-1616
bone element1.35e-1222
skeletal element1.35e-1222
skeletal system1.35e-1222
musculoskeletal system6.14e-1032
lateral plate mesoderm1.10e-0987
mesoderm5.72e-09120
mesoderm-derived structure5.72e-09120
presumptive mesoderm5.72e-09120
connective tissue1.18e-0746
hemopoietic organ2.47e-0729
immune organ2.47e-0729


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)
MA0003.10.400158
MA0004.10.258473
MA0006.10.1319
MA0007.10.246385
MA0009.10.649874
MA0014.10.13017
MA0017.10.895796
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.430035
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.10.553522
MA0043.10.74191
MA0046.10.683926
MA0048.10.0293065
MA0050.11.43876
MA0051.11.00935
MA0052.10.669354
MA0055.10.45021
MA0056.10
MA0057.10.107353
MA0058.10.541281
MA0059.10.563468
MA0060.10.279564
MA0061.10.0995825
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.807617
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.12.31589
MA0074.10.340281
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.605506
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0136969
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.879972
MA0101.10.199903
MA0103.10.477056
MA0105.10.0444807
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.242308
MA0113.10.400008
MA0114.10.323836
MA0115.10.744589
MA0116.10.8172
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.940193
MA0139.10.231431
MA0140.10.330266
MA0141.10.511953
MA0142.10.547747
MA0143.10.414534
MA0144.10.328866
MA0145.10.370377
MA0146.10.903992
MA0147.10.349075
MA0148.10.271704
MA0149.10.204102
MA0062.20.39919
MA0035.20.33429
MA0039.20.317226
MA0138.20.469076
MA0002.20.5079
MA0137.20.169785
MA0104.20.547442
MA0047.20.380343
MA0112.20.918188
MA0065.20.371748
MA0150.10.688872
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.283993
MA0155.11.02012
MA0156.10.949678
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.10.274172
MA0161.10
MA0162.10.21028
MA0163.10.493049
MA0164.10.357779
MA0080.21.46165
MA0018.20.366212
MA0099.21.17093
MA0079.20.133151
MA0102.21.35579
MA0258.10.301988
MA0259.10.331447
MA0442.10
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