MCL coexpression mm9:976: Difference between revisions
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{{MCL_coexpression_mm9| | 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n=GO:0016861;intramolecular oxidoreductase activity, interconverting aldoses and ketoses;0.000128857921359924;19703,26384!GO:0019318;hexose metabolic process;0.000128857921359924;19703,26384,69976!GO:0005996;monosaccharide metabolic process;0.000128857921359924;19703,26384,69976!GO:0006041;glucosamine metabolic process;0.000185210849153496;19703,26384!GO:0006044;N-acetylglucosamine metabolic process;0.000185210849153496;19703,26384!GO:0006040;amino sugar metabolic process;0.000278238433679989;19703,26384!GO:0044262;cellular carbohydrate metabolic process;0.000329345436162799;19703,26384,69976!GO:0006066;alcohol metabolic process;0.000329345436162799;19703,26384,69976!GO:0016860;intramolecular oxidoreductase activity;0.000605618978561636;19703,26384!GO:0005975;carbohydrate metabolic process;0.000668734135780982;19703,26384,69976!GO:0008238;exopeptidase activity;0.00184444566190033;83768,19025!GO:0004186;carboxypeptidase C activity;0.00184444566190033;19025!GO:0046370;fructose biosynthetic process;0.00184444566190033;26384!GO:0050121;N-acylglucosamine 2-epimerase activity;0.00184444566190033;19703!GO:0006002;fructose 6-phosphate metabolic process;0.00184444566190033;26384!GO:0004476;mannose-6-phosphate isomerase activity;0.00307373925502968;19703!GO:0004342;glucosamine-6-phosphate deaminase activity;0.00307373925502968;26384!GO:0004335;galactokinase activity;0.00307373925502968;69976!GO:0016853;isomerase activity;0.00360238329815844;19703,26384!GO:0005764;lysosome;0.0040717293324298;83768,19025!GO:0000323;lytic vacuole;0.0040717293324298;83768,19025!GO:0005773;vacuole;0.00467577611898372;83768,19025!GO:0004185;serine carboxypeptidase activity;0.00467577611898372;19025!GO:0008236;serine-type peptidase activity;0.00467577611898372;83768,19025!GO:0017171;serine hydrolase activity;0.00467577611898372;83768,19025!GO:0006000;fructose metabolic process;0.00512121488680332;26384!GO:0006012;galactose metabolic process;0.00512121488680332;69976!GO:0046835;carbohydrate phosphorylation;0.00592532787518543;69976!GO:0016857;racemase and epimerase activity, acting on carbohydrates and derivatives;0.00667377588904681;19703!GO:0043170;macromolecule metabolic process;0.0071181114580042;19703,83768,26384,69976,19025!GO:0007340;acrosome reaction;0.00863731630838491;26384!GO:0006013;mannose metabolic process;0.00863731630838491;19703!GO:0009308;amine metabolic process;0.00950603627406468;19703,26384!GO:0016854;racemase and epimerase activity;0.00975294890479075;19703!GO:0006807;nitrogen compound metabolic process;0.010354764594616;19703,26384!GO:0044238;primary metabolic process;0.0120339471230969;19703,83768,26384,69976,19025!GO:0044237;cellular metabolic process;0.0120339471230969;19703,83768,26384,69976,19025!GO:0017156;calcium ion-dependent exocytosis;0.0145311266733661;26384!GO:0019239;deaminase activity;0.0148648313442383;26384!GO:0019319;hexose biosynthetic process;0.0158700377757918;26384!GO:0046165;alcohol biosynthetic process;0.0164250103375253;26384!GO:0046364;monosaccharide biosynthetic process;0.0164250103375253;26384!GO:0019200;carbohydrate kinase activity;0.0186017631602618;69976!GO:0004177;aminopeptidase activity;0.0231050532608269;83768!GO:0006508;proteolysis;0.0231050532608269;83768,19025!GO:0007338;single fertilization;0.0243720217087801;26384!GO:0004180;carboxypeptidase activity;0.0243720217087801;19025!GO:0016787;hydrolase activity;0.0243720217087801;83768,26384,19025!GO:0008233;peptidase activity;0.0252410139007344;83768,19025!GO:0009566;fertilization;0.026971109984213;26384!GO:0016051;carbohydrate biosynthetic process;0.0424914869646335;26384!GO:0006887;exocytosis;0.044810011066312;26384!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=|tfbs_overrepresentation_for_novel_motifs=0.393008,0.84953,0.96259,0.434198,0.260188,0.448401,0.538088,0.173246,0.181564,0.386846,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,0.703873,0.938682,0.620214,0.332107,1.26895,1.35437,0.258745,2.61436,0.577606,0.466037,0.469052,0.303071,0.757024,0.455168,0.843667,0.699026,0.839887,0.276324,0.185086,1.26012,0.522578,0.631914,0.570041,0.256422,1.16427,0.784847,0.27776,0.663502,0.423266,1.593,0.484612,0.386968,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,1.27827,0.447041,0.555328,0.823643,1.49002,0.560836,0.713876,0.568415,1.78254,1.139,1.48833,1.9158,1.34113,0.922232,0.178433,0.236196,1.03623,0.433216,0.813951,0.42492,0.651651,0.806481,0.336166,0.530481,0.759925,0.612313,0.167672,0.920903,0.108172,0.0299392,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.62322,0.202284,0.1711,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.887702,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.333069,0.437894,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,1.35892,0.950857,1.91673,1.10792,0.570914,1.23736,0.220515,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,1.04134,0.724779,0.381863,0.0553085,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.842217|tfbs_overrepresentation_jaspar=MA0003.1;0.848341,MA0004.1;3.93894,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;1.16295,MA0017.1;0.296816,MA0019.1;0.688051,MA0024.1;0.826339,MA0025.1;1.10341,MA0027.1;2.51754,MA0028.1;0.769859,MA0029.1;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.360875,MA0042.1;0.348174,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;0.335404,MA0050.1;0.472794,MA0051.1;0.586414,MA0052.1;0.890676,MA0055.1;1.64072,MA0056.1;0,MA0057.1;0.31126,MA0058.1;7.74363,MA0059.1;2.51175,MA0060.1;0.197678,MA0061.1;0.638933,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;0.0965831,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;1.1212e-05,MA0074.1;2.26329,MA0076.1;0.315013,MA0077.1;0.851175,MA0078.1;0.61926,MA0081.1;0.980744,MA0083.1;0.96604,MA0084.1;1.54225,MA0087.1;0.922929,MA0088.1;0.064239,MA0089.1;0,MA0090.1;0.401197,MA0091.1;1.13691,MA0092.1;0.401504,MA0093.1;7.12042,MA0095.1;0,MA0098.1;0,MA0100.1;0.519598,MA0101.1;0.362124,MA0103.1;0.827743,MA0105.1;0.823589,MA0106.1;0.626997,MA0107.1;0.301222,MA0108.2;0.710846,MA0109.1;0,MA0111.1;1.06639,MA0113.1;0.598933,MA0114.1;1.18683,MA0115.1;0.969632,MA0116.1;0.747001,MA0117.1;0.937363,MA0119.1;0.362692,MA0122.1;0.957212,MA0124.1;1.16127,MA0125.1;1.0872,MA0130.1;0,MA0131.1;0.683521,MA0132.1;0,MA0133.1;0,MA0135.1;1.00325,MA0136.1;0.550755,MA0139.1;0.977634,MA0140.1;0.519484,MA0141.1;0.325895,MA0142.1;0.761136,MA0143.1;0.615203,MA0144.1;0.225588,MA0145.1;0.246409,MA0146.1;0.636109,MA0147.1;1.24068,MA0148.1;0.450593,MA0149.1;0.367458,MA0062.2;0.426733,MA0035.2;0.524137,MA0039.2;0.812684,MA0138.2;0.675599,MA0002.2;0.513194,MA0137.2;0.32312,MA0104.2;1.64215,MA0047.2;0.576767,MA0112.2;0.527225,MA0065.2;0.247168,MA0150.1;0.419883,MA0151.1;0,MA0152.1;0.576873,MA0153.1;1.01988,MA0154.1;0.100744,MA0155.1;0.275377,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;0.246253,MA0160.1;0.453546,MA0161.1;0,MA0162.1;0.0925951,MA0163.1;0.669601,MA0164.1;0.551114,MA0080.2;0.302064,MA0018.2;0.560731,MA0099.2;1.60616,MA0079.2;0.118858,MA0102.2;1.59466,MA0258.1;0.60477,MA0259.1;0.227035,MA0442.1;0}} | ||
Latest revision as of 16:11, 17 September 2013
Phase1 CAGE Peaks
| Short description | |
|---|---|
| Mm9::chr18:38498588..38498639,- | p1@Gnpda1 |
| Mm9::chr18:38498651..38498661,- | p2@Gnpda1 |
| Mm9::chr2:125691960..125692018,+ | p1@Galk2 |
| Mm9::chr2:125692019..125692041,+ | p2@Galk2 |
| Mm9::chr2:164659341..164659352,+ | p3@Ctsa |
| Mm9::chr2:25211831..25211838,- | p2@Dpp7 |
| Mm9::chr9:114310210..114310251,+ | p1@Tmppe p2@Glb1 |
| Mm9::chrX:71176090..71176162,- | p1@Renbp |
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:0016861 | intramolecular oxidoreductase activity, interconverting aldoses and ketoses | 0.000128857921359924 |
| GO:0019318 | hexose metabolic process | 0.000128857921359924 |
| GO:0005996 | monosaccharide metabolic process | 0.000128857921359924 |
| GO:0006041 | glucosamine metabolic process | 0.000185210849153496 |
| GO:0006044 | N-acetylglucosamine metabolic process | 0.000185210849153496 |
| GO:0006040 | amino sugar metabolic process | 0.000278238433679989 |
| GO:0044262 | cellular carbohydrate metabolic process | 0.000329345436162799 |
| GO:0006066 | alcohol metabolic process | 0.000329345436162799 |
| GO:0016860 | intramolecular oxidoreductase activity | 0.000605618978561636 |
| GO:0005975 | carbohydrate metabolic process | 0.000668734135780982 |
| GO:0008238 | exopeptidase activity | 0.00184444566190033 |
| GO:0004186 | carboxypeptidase C activity | 0.00184444566190033 |
| GO:0046370 | fructose biosynthetic process | 0.00184444566190033 |
| GO:0050121 | N-acylglucosamine 2-epimerase activity | 0.00184444566190033 |
| GO:0006002 | fructose 6-phosphate metabolic process | 0.00184444566190033 |
| GO:0004476 | mannose-6-phosphate isomerase activity | 0.00307373925502968 |
| GO:0004342 | glucosamine-6-phosphate deaminase activity | 0.00307373925502968 |
| GO:0004335 | galactokinase activity | 0.00307373925502968 |
| GO:0016853 | isomerase activity | 0.00360238329815844 |
| GO:0005764 | lysosome | 0.0040717293324298 |
| GO:0000323 | lytic vacuole | 0.0040717293324298 |
| GO:0005773 | vacuole | 0.00467577611898372 |
| GO:0004185 | serine carboxypeptidase activity | 0.00467577611898372 |
| GO:0008236 | serine-type peptidase activity | 0.00467577611898372 |
| GO:0017171 | serine hydrolase activity | 0.00467577611898372 |
| GO:0006000 | fructose metabolic process | 0.00512121488680332 |
| GO:0006012 | galactose metabolic process | 0.00512121488680332 |
| GO:0046835 | carbohydrate phosphorylation | 0.00592532787518543 |
| GO:0016857 | racemase and epimerase activity, acting on carbohydrates and derivatives | 0.00667377588904681 |
| GO:0043170 | macromolecule metabolic process | 0.0071181114580042 |
| GO:0007340 | acrosome reaction | 0.00863731630838491 |
| GO:0006013 | mannose metabolic process | 0.00863731630838491 |
| GO:0009308 | amine metabolic process | 0.00950603627406468 |
| GO:0016854 | racemase and epimerase activity | 0.00975294890479075 |
| GO:0006807 | nitrogen compound metabolic process | 0.010354764594616 |
| GO:0044238 | primary metabolic process | 0.0120339471230969 |
| GO:0044237 | cellular metabolic process | 0.0120339471230969 |
| GO:0017156 | calcium ion-dependent exocytosis | 0.0145311266733661 |
| GO:0019239 | deaminase activity | 0.0148648313442383 |
| GO:0019319 | hexose biosynthetic process | 0.0158700377757918 |
| GO:0046165 | alcohol biosynthetic process | 0.0164250103375253 |
| GO:0046364 | monosaccharide biosynthetic process | 0.0164250103375253 |
| GO:0019200 | carbohydrate kinase activity | 0.0186017631602618 |
| GO:0004177 | aminopeptidase activity | 0.0231050532608269 |
| GO:0006508 | proteolysis | 0.0231050532608269 |
| GO:0007338 | single fertilization | 0.0243720217087801 |
| GO:0004180 | carboxypeptidase activity | 0.0243720217087801 |
| GO:0016787 | hydrolase activity | 0.0243720217087801 |
| GO:0008233 | peptidase activity | 0.0252410139007344 |
| GO:0009566 | fertilization | 0.026971109984213 |
| GO:0016051 | carbohydrate biosynthetic process | 0.0424914869646335 |
| GO:0006887 | exocytosis | 0.044810011066312 |
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><br><br>
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 | 0.848341 |
| MA0004.1 | 3.93894 |
| MA0006.1 | 0.271714 |
| MA0007.1 | 0.419994 |
| MA0009.1 | 0.870101 |
| MA0014.1 | 1.16295 |
| MA0017.1 | 0.296816 |
| MA0019.1 | 0.688051 |
| MA0024.1 | 0.826339 |
| MA0025.1 | 1.10341 |
| MA0027.1 | 2.51754 |
| MA0028.1 | 0.769859 |
| MA0029.1 | 0.804619 |
| MA0030.1 | 0.811181 |
| MA0031.1 | 0.775627 |
| MA0038.1 | 0.577528 |
| MA0040.1 | 0.882616 |
| MA0041.1 | 0.360875 |
| MA0042.1 | 0.348174 |
| MA0043.1 | 0.966833 |
| MA0046.1 | 0.906029 |
| MA0048.1 | 0.335404 |
| MA0050.1 | 0.472794 |
| MA0051.1 | 0.586414 |
| MA0052.1 | 0.890676 |
| MA0055.1 | 1.64072 |
| MA0056.1 | 0 |
| MA0057.1 | 0.31126 |
| MA0058.1 | 7.74363 |
| MA0059.1 | 2.51175 |
| MA0060.1 | 0.197678 |
| MA0061.1 | 0.638933 |
| MA0063.1 | 0 |
| MA0066.1 | 0.566617 |
| MA0067.1 | 1.21448 |
| MA0068.1 | 0.0965831 |
| MA0069.1 | 0.891016 |
| MA0070.1 | 0.881319 |
| MA0071.1 | 0.471969 |
| MA0072.1 | 0.872842 |
| MA0073.1 | 1.1212e-05 |
| MA0074.1 | 2.26329 |
| MA0076.1 | 0.315013 |
| MA0077.1 | 0.851175 |
| MA0078.1 | 0.61926 |
| MA0081.1 | 0.980744 |
| MA0083.1 | 0.96604 |
| MA0084.1 | 1.54225 |
| MA0087.1 | 0.922929 |
| MA0088.1 | 0.064239 |
| MA0089.1 | 0 |
| MA0090.1 | 0.401197 |
| MA0091.1 | 1.13691 |
| MA0092.1 | 0.401504 |
| MA0093.1 | 7.12042 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.519598 |
| MA0101.1 | 0.362124 |
| MA0103.1 | 0.827743 |
| MA0105.1 | 0.823589 |
| MA0106.1 | 0.626997 |
| MA0107.1 | 0.301222 |
| MA0108.2 | 0.710846 |
| MA0109.1 | 0 |
| MA0111.1 | 1.06639 |
| MA0113.1 | 0.598933 |
| MA0114.1 | 1.18683 |
| MA0115.1 | 0.969632 |
| MA0116.1 | 0.747001 |
| MA0117.1 | 0.937363 |
| MA0119.1 | 0.362692 |
| MA0122.1 | 0.957212 |
| MA0124.1 | 1.16127 |
| MA0125.1 | 1.0872 |
| MA0130.1 | 0 |
| MA0131.1 | 0.683521 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 1.00325 |
| MA0136.1 | 0.550755 |
| MA0139.1 | 0.977634 |
| MA0140.1 | 0.519484 |
| MA0141.1 | 0.325895 |
| MA0142.1 | 0.761136 |
| MA0143.1 | 0.615203 |
| MA0144.1 | 0.225588 |
| MA0145.1 | 0.246409 |
| MA0146.1 | 0.636109 |
| MA0147.1 | 1.24068 |
| MA0148.1 | 0.450593 |
| MA0149.1 | 0.367458 |
| MA0062.2 | 0.426733 |
| MA0035.2 | 0.524137 |
| MA0039.2 | 0.812684 |
| MA0138.2 | 0.675599 |
| MA0002.2 | 0.513194 |
| MA0137.2 | 0.32312 |
| MA0104.2 | 1.64215 |
| MA0047.2 | 0.576767 |
| MA0112.2 | 0.527225 |
| MA0065.2 | 0.247168 |
| MA0150.1 | 0.419883 |
| MA0151.1 | 0 |
| MA0152.1 | 0.576873 |
| MA0153.1 | 1.01988 |
| MA0154.1 | 0.100744 |
| MA0155.1 | 0.275377 |
| MA0156.1 | 0.314185 |
| MA0157.1 | 0.729116 |
| MA0158.1 | 0 |
| MA0159.1 | 0.246253 |
| MA0160.1 | 0.453546 |
| MA0161.1 | 0 |
| MA0162.1 | 0.0925951 |
| MA0163.1 | 0.669601 |
| MA0164.1 | 0.551114 |
| MA0080.2 | 0.302064 |
| MA0018.2 | 0.560731 |
| MA0099.2 | 1.60616 |
| MA0079.2 | 0.118858 |
| MA0102.2 | 1.59466 |
| MA0258.1 | 0.60477 |
| MA0259.1 | 0.227035 |
| MA0442.1 | 0 |
