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MCL coexpression mm9:423: Difference between revisions

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{{MCL_coexpression_mm9
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9025!GO:0000323;lytic vacuole;3.9790322658491e-08;17159,83768,74919,19141,12751,19025!GO:0005773;vacuole;5.35678442454625e-08;17159,83768,74919,19141,12751,19025!GO:0004559;alpha-mannosidase activity;0.00022402824154555;17159,17160!GO:0006013;mannose metabolic process;0.000536882639692648;17159,17160!GO:0008238;exopeptidase activity;0.000708081257451535;83768,12751,19025!GO:0015923;mannosidase activity;0.000774364732215079;17159,17160!GO:0004177;aminopeptidase activity;0.00394371374385564;83768,12751!GO:0017171;serine hydrolase activity;0.00394371374385564;83768,12751,19025!GO:0008236;serine-type peptidase activity;0.00394371374385564;83768,12751,19025!GO:0006508;proteolysis;0.00660720370132939;83768,19141,12751,19025!GO:0004186;carboxypeptidase C activity;0.00680771686289669;19025!GO:0019131;tripeptidyl-peptidase I activity;0.00680771686289669;12751!GO:0043171;peptide catabolic process;0.00680771686289669;12751!GO:0008233;peptidase activity;0.00680771686289669;83768,19141,12751,19025!GO:0016787;hydrolase activity;0.00908076867295631;17159,83768,17160,19141,12751,19025!GO:0008240;tripeptidyl-peptidase activity;0.0110268265042963;12751!GO:0001509;legumain activity;0.0110268265042963;19141!GO:0004553;hydrolase activity, hydrolyzing O-glycosyl compounds;0.011419743294679;17159,17160!GO:0016798;hydrolase activity, acting on glycosyl bonds;0.0162810385064759;17159,17160!GO:0004175;endopeptidase activity;0.0162810385064759;83768,19141,12751!GO:0004185;serine carboxypeptidase activity;0.0180330260152798;19025!GO:0019318;hexose metabolic process;0.0203214838823665;17159,17160!GO:0045862;positive regulation of proteolysis;0.0203214838823665;12751!GO:0005996;monosaccharide metabolic process;0.0203214838823665;17159,17160!GO:0040015;negative regulation of multicellular organism growth;0.0324324902690303;19141!GO:0006518;peptide metabolic process;0.0324324902690303;12751!GO:0005615;extracellular space;0.0324324902690303;83768,56700,17160,21767,12751!GO:0004252;serine-type endopeptidase activity;0.033188059845617;83768,12751!GO:0044421;extracellular region part;0.0382839822925629;83768,56700,17160,21767,12751!GO:0050772;positive regulation of axonogenesis;0.0382839822925629;140570!GO:0044444;cytoplasmic part;0.0382839822925629;17159,83768,74919,19141,12751,19025!GO:0030162;regulation of proteolysis;0.0389657680671849;12751!GO:0004289;subtilase activity;0.0400757626685785;12751!GO:0007040;lysosome organization and biogenesis;0.0400757626685785;12751!GO:0045453;bone resorption;0.0400757626685785;12751!GO:0050769;positive regulation of neurogenesis;0.0400757626685785;140570!GO:0044262;cellular carbohydrate metabolic process;0.0440792899334869;17159,17160!GO:0006066;alcohol metabolic process;0.0449581600631616;17159,17160!GO:0007033;vacuole organization and 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|gostat_on_MCL_coexpression=GO:0005764;lysosome;3.9790322658491e-08;17159,83768,74919,19141,12751,19025!GO:0000323;lytic vacuole;3.9790322658491e-08;17159,83768,74919,19141,12751,19025!GO:0005773;vacuole;5.35678442454625e-08;17159,83768,74919,19141,12751,19025!GO:0004559;alpha-mannosidase activity;0.00022402824154555;17159,17160!GO:0006013;mannose metabolic process;0.000536882639692648;17159,17160!GO:0008238;exopeptidase activity;0.000708081257451535;83768,12751,19025!GO:0015923;mannosidase activity;0.000774364732215079;17159,17160!GO:0004177;aminopeptidase activity;0.00394371374385564;83768,12751!GO:0017171;serine hydrolase activity;0.00394371374385564;83768,12751,19025!GO:0008236;serine-type peptidase activity;0.00394371374385564;83768,12751,19025!GO:0006508;proteolysis;0.00660720370132939;83768,19141,12751,19025!GO:0004186;carboxypeptidase C activity;0.00680771686289669;19025!GO:0019131;tripeptidyl-peptidase I activity;0.00680771686289669;12751!GO:0043171;peptide catabolic process;0.00680771686289669;12751!GO:0008233;peptidase activity;0.00680771686289669;83768,19141,12751,19025!GO:0016787;hydrolase activity;0.00908076867295631;17159,83768,17160,19141,12751,19025!GO:0008240;tripeptidyl-peptidase activity;0.0110268265042963;12751!GO:0001509;legumain activity;0.0110268265042963;19141!GO:0004553;hydrolase activity, hydrolyzing O-glycosyl compounds;0.011419743294679;17159,17160!GO:0016798;hydrolase activity, acting on glycosyl bonds;0.0162810385064759;17159,17160!GO:0004175;endopeptidase activity;0.0162810385064759;83768,19141,12751!GO:0004185;serine carboxypeptidase activity;0.0180330260152798;19025!GO:0019318;hexose metabolic process;0.0203214838823665;17159,17160!GO:0045862;positive regulation of proteolysis;0.0203214838823665;12751!GO:0005996;monosaccharide metabolic process;0.0203214838823665;17159,17160!GO:0040015;negative regulation of multicellular organism growth;0.0324324902690303;19141!GO:0006518;peptide metabolic process;0.0324324902690303;12751!GO:0005615;extracellular space;0.0324324902690303;83768,56700,17160,21767,12751!GO:0004252;serine-type endopeptidase activity;0.033188059845617;83768,12751!GO:0044421;extracellular region part;0.0382839822925629;83768,56700,17160,21767,12751!GO:0050772;positive regulation of axonogenesis;0.0382839822925629;140570!GO:0044444;cytoplasmic part;0.0382839822925629;17159,83768,74919,19141,12751,19025!GO:0030162;regulation of proteolysis;0.0389657680671849;12751!GO:0004289;subtilase activity;0.0400757626685785;12751!GO:0007040;lysosome organization and biogenesis;0.0400757626685785;12751!GO:0045453;bone resorption;0.0400757626685785;12751!GO:0050769;positive regulation of neurogenesis;0.0400757626685785;140570!GO:0044262;cellular carbohydrate metabolic process;0.0440792899334869;17159,17160!GO:0006066;alcohol metabolic process;0.0449581600631616;17159,17160!GO:0007033;vacuole organization and biogenesis;0.0468989193720354;12751!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!4.13e-10!51;UBERON:0005256!1.77e-07!45
|tfbs_overrepresentation_for_novel_motifs=0.94561,0.380762,0.873196,0.191238,0.271545,0.201606,0.270195,0.146885,0.15797,0.372426,0.236307,0.260789,0.340991,0.27987,0.295744,0,1.1241,0.0750368,0.307533,0.478834,0.385752,0.32474,0.279154,0.26934,0.457081,0.816061,0.289597,0.216938,0.338701,0.393858,0.206597,0.531719,0.546575,1.10714,1.53288,0.00844381,0.523031,0.715898,0.812295,0.0468666,0.0770075,1.13898,0.28733,0.298695,0.369976,1.03234,0.974269,0.228683,0.372601,0.699131,1.09109,0.323798,0.61775,0.661847,0.67813,0.779015,0.356911,0.699566,0.27058,0.77532,1.27858,0.882655,0.69092,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.821426,0.353861,0.349939,0.709559,0.481813,0.722761,0.468707,0.363297,0.498264,0.124234,0.3566,0.456892,0.330377,0.139579,0.602212,0.333038,0.0669878,0.0797642,0.377064,1.30447,0.873554,0.606796,0.543309,0.0821171,0.057338,0.0497835,0.14406,1.34695,0.373124,0.0619917,0.0693846,0.531465,1.55675,0.4269,0.425983,0.603853,0.478524,0.225669,0.400135,1.26837,0.157325,1.56021,0.394208,0.67478,0.880323,0.263255,1.85086,1.69212,0.442771,0.0675617,0.714636,0.398522,0.303371,0.362534,0.932468,0.501574,0.276618,0.53717,0.805419,0.0836776,0.629874,0.186072,0.777296,0.296474,0.9011,0.0259009,0.167758,0.211406,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,1.14027,0.980089,1.62988,0.505775,0.27407,0.0181622,0.153352,0.66331,0.194002,0.29573,0.739975,0.867144,0.0943424,0.160402,0.167568,2.00618,0.601424,0.501973,0.15582,0.417485,0.289792,1.33937,0.259556,0.405191
|tfbs_overrepresentation_jaspar=MA0003.1;0.444916,MA0004.1;1.67902,MA0006.1;0.0854592,MA0007.1;0.534201,MA0009.1;0.5557,MA0014.1;1.20392,MA0017.1;0.0999826,MA0019.1;0.394308,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;1.56123,MA0029.1;0.496599,MA0030.1;0.502474,MA0031.1;0.470779,MA0038.1;0.301835,MA0040.1;0.567108,MA0041.1;0.140298,MA0042.1;0.131965,MA0043.1;0.644695,MA0046.1;0.58854,MA0048.1;0.166935,MA0050.1;1.17524,MA0051.1;0.832236,MA0052.1;0.574473,MA0055.1;0.368697,MA0056.1;0,MA0057.1;0.0539481,MA0058.1;2.54453,MA0059.1;0.13543,MA0060.1;0.0476793,MA0061.1;0.218812,MA0063.1;0,MA0066.1;0.293002,MA0067.1;0.879099,MA0068.1;0.0569808,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.625332,MA0072.1;1.37306,MA0073.1;6.3398e-09,MA0074.1;0.731206,MA0076.1;1.74277,MA0077.1;0.538513,MA0078.1;0.336143,MA0081.1;0.150322,MA0083.1;1.55326,MA0084.1;1.1979,MA0087.1;0.604077,MA0088.1;0.336188,MA0089.1;0,MA0090.1;0.969034,MA0091.1;0.582275,MA0092.1;0.969912,MA0093.1;2.84135,MA0095.1;0,MA0098.1;0,MA0100.1;0.255651,MA0101.1;0.857622,MA0103.1;0.345124,MA0105.1;0.0968542,MA0106.1;0.342589,MA0107.1;0.686139,MA0108.2;0.413973,MA0109.1;0,MA0111.1;0.177475,MA0113.1;0.319332,MA0114.1;0.215695,MA0115.1;0.647296,MA0116.1;0.288992,MA0117.1;0.617392,MA0119.1;1.386,MA0122.1;0.635764,MA0124.1;0.828115,MA0125.1;0.757653,MA0130.1;0,MA0131.1;1.79172,MA0132.1;0,MA0133.1;0,MA0135.1;0.67864,MA0136.1;0.280269,MA0139.1;1.81608,MA0140.1;0.255562,MA0141.1;1.23603,MA0142.1;0.457961,MA0143.1;0.332773,MA0144.1;0.219807,MA0145.1;0.584715,MA0146.1;0.343991,MA0147.1;0.0666796,MA0148.1;0.203219,MA0149.1;0.144679,MA0062.2;1.51978,MA0035.2;0.259203,MA0039.2;1.03231,MA0138.2;0.383644,MA0002.2;0.957632,MA0137.2;0.116005,MA0104.2;0.162663,MA0047.2;0.301217,MA0112.2;2.79391,MA0065.2;0.372253,MA0150.1;0.180943,MA0151.1;0,MA0152.1;0.301303,MA0153.1;0.694211,MA0154.1;0.325394,MA0155.1;0.246884,MA0156.1;0.722377,MA0157.1;0.429861,MA0158.1;0,MA0159.1;0.0715631,MA0160.1;0.592791,MA0161.1;0,MA0162.1;0.419845,MA0163.1;0.540279,MA0164.1;0.280556,MA0080.2;0.337091,MA0018.2;0.288261,MA0099.2;0.37828,MA0079.2;0.00674545,MA0102.2;1.24942,MA0258.1;2.76083,MA0259.1;0.221921,MA0442.1;0
}}

Latest revision as of 15:16, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:116715066..116715150,+p1@Mfsd11
Mm9::chr12:103677954..103677968,-p3@Lgmn
Mm9::chr12:8320231..8320260,+p1@Hs1bp3
Mm9::chr15:89004361..89004407,-p3@Plxnb2
Mm9::chr2:164659281..164659312,+p1@Ctsa
Mm9::chr2:25211839..25211886,-p1@Dpp7
Mm9::chr3:53267122..53267154,-p2@Nhlrc3
Mm9::chr3:53267156..53267228,-p1@Nhlrc3
Mm9::chr3:88128952..88128997,+p1@0610031J06Rik
Mm9::chr5:30950308..30950371,+p1@4930471M23Rik
Mm9::chr5:31210065..31210126,-p1@Gm19774
p1@Ost4
Mm9::chr5:37221812..37221885,-p1@Man2b2
Mm9::chr5:37221886..37221896,-p2@Man2b2
Mm9::chr7:112900707..112900748,-p1@Tpp1
Mm9::chr8:87607168..87607196,+p2@Man2b1
Mm9::chr8:98377401..98377430,-p1@Slc38a7
Mm9::chr9:106587656..106587694,-p2@Tex264
Mm9::chr9:106587698..106587716,-p10@Tex264


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:0005764lysosome3.9790322658491e-08
GO:0000323lytic vacuole3.9790322658491e-08
GO:0005773vacuole5.35678442454625e-08
GO:0004559alpha-mannosidase activity0.00022402824154555
GO:0006013mannose metabolic process0.000536882639692648
GO:0008238exopeptidase activity0.000708081257451535
GO:0015923mannosidase activity0.000774364732215079
GO:0004177aminopeptidase activity0.00394371374385564
GO:0017171serine hydrolase activity0.00394371374385564
GO:0008236serine-type peptidase activity0.00394371374385564
GO:0006508proteolysis0.00660720370132939
GO:0004186carboxypeptidase C activity0.00680771686289669
GO:0019131tripeptidyl-peptidase I activity0.00680771686289669
GO:0043171peptide catabolic process0.00680771686289669
GO:0008233peptidase activity0.00680771686289669
GO:0016787hydrolase activity0.00908076867295631
GO:0008240tripeptidyl-peptidase activity0.0110268265042963
GO:0001509legumain activity0.0110268265042963
GO:0004553hydrolase activity, hydrolyzing O-glycosyl compounds0.011419743294679
GO:0016798hydrolase activity, acting on glycosyl bonds0.0162810385064759
GO:0004175endopeptidase activity0.0162810385064759
GO:0004185serine carboxypeptidase activity0.0180330260152798
GO:0019318hexose metabolic process0.0203214838823665
GO:0045862positive regulation of proteolysis0.0203214838823665
GO:0005996monosaccharide metabolic process0.0203214838823665
GO:0040015negative regulation of multicellular organism growth0.0324324902690303
GO:0006518peptide metabolic process0.0324324902690303
GO:0005615extracellular space0.0324324902690303
GO:0004252serine-type endopeptidase activity0.033188059845617
GO:0044421extracellular region part0.0382839822925629
GO:0050772positive regulation of axonogenesis0.0382839822925629
GO:0044444cytoplasmic part0.0382839822925629
GO:0030162regulation of proteolysis0.0389657680671849
GO:0004289subtilase activity0.0400757626685785
GO:0007040lysosome organization and biogenesis0.0400757626685785
GO:0045453bone resorption0.0400757626685785
GO:0050769positive regulation of neurogenesis0.0400757626685785
GO:0044262cellular carbohydrate metabolic process0.0440792899334869
GO:0006066alcohol metabolic process0.0449581600631616
GO:0007033vacuole organization and biogenesis0.0468989193720354



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism4.13e-1051
trunk mesenchyme1.77e-0745


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)
MA0003.10.444916
MA0004.11.67902
MA0006.10.0854592
MA0007.10.534201
MA0009.10.5557
MA0014.11.20392
MA0017.10.0999826
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.11.56123
MA0029.10.496599
MA0030.10.502474
MA0031.10.470779
MA0038.10.301835
MA0040.10.567108
MA0041.10.140298
MA0042.10.131965
MA0043.10.644695
MA0046.10.58854
MA0048.10.166935
MA0050.11.17524
MA0051.10.832236
MA0052.10.574473
MA0055.10.368697
MA0056.10
MA0057.10.0539481
MA0058.12.54453
MA0059.10.13543
MA0060.10.0476793
MA0061.10.218812
MA0063.10
MA0066.10.293002
MA0067.10.879099
MA0068.10.0569808
MA0069.10.574784
MA0070.10.565924
MA0071.10.625332
MA0072.11.37306
MA0073.16.3398e-09
MA0074.10.731206
MA0076.11.74277
MA0077.10.538513
MA0078.10.336143
MA0081.10.150322
MA0083.11.55326
MA0084.11.1979
MA0087.10.604077
MA0088.10.336188
MA0089.10
MA0090.10.969034
MA0091.10.582275
MA0092.10.969912
MA0093.12.84135
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.10.857622
MA0103.10.345124
MA0105.10.0968542
MA0106.10.342589
MA0107.10.686139
MA0108.20.413973
MA0109.10
MA0111.10.177475
MA0113.10.319332
MA0114.10.215695
MA0115.10.647296
MA0116.10.288992
MA0117.10.617392
MA0119.11.386
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.11.79172
MA0132.10
MA0133.10
MA0135.10.67864
MA0136.10.280269
MA0139.11.81608
MA0140.10.255562
MA0141.11.23603
MA0142.10.457961
MA0143.10.332773
MA0144.10.219807
MA0145.10.584715
MA0146.10.343991
MA0147.10.0666796
MA0148.10.203219
MA0149.10.144679
MA0062.21.51978
MA0035.20.259203
MA0039.21.03231
MA0138.20.383644
MA0002.20.957632
MA0137.20.116005
MA0104.20.162663
MA0047.20.301217
MA0112.22.79391
MA0065.20.372253
MA0150.10.180943
MA0151.10
MA0152.10.301303
MA0153.10.694211
MA0154.10.325394
MA0155.10.246884
MA0156.10.722377
MA0157.10.429861
MA0158.10
MA0159.10.0715631
MA0160.10.592791
MA0161.10
MA0162.10.419845
MA0163.10.540279
MA0164.10.280556
MA0080.20.337091
MA0018.20.288261
MA0099.20.37828
MA0079.20.00674545
MA0102.21.24942
MA0258.12.76083
MA0259.10.221921
MA0442.10
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