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MCL coexpression mm9:448: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000344!1.17e-38!15;UBERON:0000160!3.26e-34!31;UBERON:0001242!2.90e-32!13;UBERON:0000060!2.90e-32!13;UBERON:0001262!2.90e-32!13;UBERON:0004786!2.90e-32!13;UBERON:0004923!2.87e-23!24;UBERON:0005409!1.93e-21!47;UBERON:0003350!8.56e-19!9;UBERON:0004808!8.56e-19!9;UBERON:0001277!8.56e-19!9;UBERON:0002108!1.76e-15!4;UBERON:0000485!3.14e-15!11;UBERON:0000331!1.36e-12!3;UBERON:0002116!1.36e-12!3;UBERON:0001204!1.36e-12!3;UBERON:0001168!1.36e-12!3;UBERON:0001007!1.02e-08!116;UBERON:0001555!1.02e-08!116;UBERON:0007026!1.02e-08!116;UBERON:0004119!1.66e-08!118;UBERON:0000925!1.66e-08!118;UBERON:0006595!1.66e-08!118;UBERON:0001962!6.18e-08!2;UBERON:0001961!6.18e-08!2;UBERON:0001744!6.18e-08!2;UBERON:0004921!7.75e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.0809701,0.157426,0.593409,0.296927,0.618816,0.286882,0.670577,0.177198,0.1389,0.252112,0.277243,0.165655,0.296787,0.322172,0,0.46143,1.00414,0.147449,0.0589119,1.93173,0.208446,0.296055,0.613765,0.16256,0.319311,0.0343308,0.232181,0.114379,0.0210931,0.22152,0.552579,0.590954,0.0278696,0.0978183,0.373683,0.0778621,0.274364,0.874944,0.0536011,0.607192,0.225414,0.0831874,0.0986861,0.00388447,0.197508,0.391673,0.244272,0.428134,0.116163,0.445973,0.341665,0.0860531,0.683824,0.700221,0.302599,1.83471,0.26711,0.0312527,0.300938,0.534331,0.349585,0.192373,0.43605,0.311703,0.471894,0.829699,1.16897,0.530087,1.02503,0.444898,2.01737,0.00693324,0.731855,0.0291015,0.263994,0.279429,0.381898,0.518764,0.835355,0.393181,0.476893,0.920052,1.00736,0.623727,0.000989898,0.00938132,0.0927017,0.395899,1.32869,0.896685,0.62835,0.564287,1.56549,0.0649512,0.455703,0.370414,0.56686,0.391893,0.614116,0.959508,0.552324,0.667487,0.446498,0.445567,0.225081,0.498793,0.241171,0.139088,0.134388,0.980265,0.669156,0.136675,0.256145,0.903482,0.288262,0.0438361,0.208431,0.462587,0.55693,0.736964,0.4177,0.858612,0.381122,0.955823,0.522111,0.293459,0.558086,0.828246,0.641535,0.651613,0.200314,0.799981,0.313768,0.92434,0.00586127,0.181334,0.226479,0.876916,1.69384,1.29725,0.834212,0.330794,0.562149,0.439856,0.225756,1.02134,1.65442,0.183006,0.0892035,0.0217799,0.00478823,0.685297,0.0594762,0.313008,0.762455,0.342508,0.694768,0.993295,0.181136,0.886073,0.622933,0.522515,0.168927,1.11397,0.306938,0.266569,0.275979,0.000250001
|tfbs_overrepresentation_jaspar=MA0003.1;0.00250018,MA0004.1;0.206012,MA0006.1;0.315449,MA0007.1;0.195085,MA0009.1;0.576798,MA0014.1;0.00023305,MA0017.1;0.110433,MA0019.1;0.413421,MA0024.1;0.536784,MA0025.1;0.795679,MA0027.1;2.19092,MA0028.1;0.100975,MA0029.1;0.51708,MA0030.1;0.523021,MA0031.1;0.490954,MA0038.1;0.319246,MA0040.1;0.588314,MA0041.1;0.152751,MA0042.1;0.144042,MA0043.1;0.666547,MA0046.1;1.48203,MA0048.1;0.0160841,MA0050.1;0.235075,MA0051.1;0.326637,MA0052.1;2.47403,MA0055.1;0.00852128,MA0056.1;0,MA0057.1;0.0134783,MA0058.1;0.139612,MA0059.1;0.147666,MA0060.1;0.0544856,MA0061.1;0.0684878,MA0063.1;0,MA0066.1;2.30054,MA0067.1;0.902253,MA0068.1;0.349285,MA0069.1;0.59606,MA0070.1;0.587119,MA0071.1;0.234437,MA0072.1;0.579318,MA0073.1;7.72778e-11,MA0074.1;0.769072,MA0076.1;0.122031,MA0077.1;0.559443,MA0078.1;0.354249,MA0081.1;0.950346,MA0083.1;0.665805,MA0084.1;1.22195,MA0087.1;0.625609,MA0088.1;0.101322,MA0089.1;0,MA0090.1;0.534933,MA0091.1;0.215731,MA0092.1;0.535473,MA0093.1;0.105788,MA0095.1;0,MA0098.1;0,MA0100.1;0.271974,MA0101.1;0.153616,MA0103.1;0.751604,MA0105.1;0.0264543,MA0106.1;0.947606,MA0107.1;0.113208,MA0108.2;0.433384,MA0109.1;0,MA0111.1;0.191411,MA0113.1;0.337108,MA0114.1;0.0673452,MA0115.1;0.669167,MA0116.1;1.08249,MA0117.1;0.639033,MA0119.1;1.46173,MA0122.1;0.657549,MA0124.1;0.851049,MA0125.1;0.780232,MA0130.1;0,MA0131.1;0.409473,MA0132.1;0,MA0133.1;0,MA0135.1;0.700734,MA0136.1;0.805431,MA0139.1;0.0414323,MA0140.1;2.93488,MA0141.1;0.129134,MA0142.1;0.477975,MA0143.1;0.925469,MA0144.1;1.33989,MA0145.1;0.00768581,MA0146.1;0.0136869,MA0147.1;0.0750034,MA0148.1;0.622748,MA0149.1;0.157322,MA0062.2;0.0281188,MA0035.2;2.1267,MA0039.2;0.000117372,MA0138.2;0.402586,MA0002.2;1.03486,MA0137.2;0.400341,MA0104.2;0.0483916,MA0047.2;0.318614,MA0112.2;2.05946,MA0065.2;0.115152,MA0150.1;0.567944,MA0151.1;0,MA0152.1;0.318703,MA0153.1;0.716409,MA0154.1;0.366592,MA0155.1;0.010056,MA0156.1;0.385341,MA0157.1;0.4495,MA0158.1;0,MA0159.1;0.0802352,MA0160.1;0.220282,MA0161.1;0,MA0162.1;0.000667848,MA0163.1;0.000516301,MA0164.1;0.806095,MA0080.2;1.76688,MA0018.2;0.305372,MA0099.2;0.397135,MA0079.2;1.5775e-10,MA0102.2;1.27355,MA0258.1;0.478272,MA0259.1;0.0696308,MA0442.1;0
}}

Latest revision as of 15:19, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:103636618..103636650,+p2@Bcl2l15
Mm9::chr6:128598978..128598983,+p@chr6:128598978..128598983
+
Mm9::chr6:78320871..78320886,+p1@Reg3b
Mm9::chr6:78321164..78321177,+p@chr6:78321164..78321177
+
Mm9::chr6:78321183..78321200,+p@chr6:78321183..78321200
+
Mm9::chr6:78321216..78321221,+p@chr6:78321216..78321221
+
Mm9::chr6:78321824..78321831,+p@chr6:78321824..78321831
+
Mm9::chr6:78321842..78321860,+p@chr6:78321842..78321860
+
Mm9::chr6:78321851..78321871,-p@chr6:78321851..78321871
-
Mm9::chr6:78322091..78322132,+p@chr6:78322091..78322132
+
Mm9::chr6:78322134..78322178,+p@chr6:78322134..78322178
+
Mm9::chr6:78322203..78322212,-p@chr6:78322203..78322212
-
Mm9::chr6:78322817..78322858,+p@chr6:78322817..78322858
+
Mm9::chr6:78322861..78322889,+p@chr6:78322861..78322889
+
Mm9::chr6:78322884..78322899,-p@chr6:78322884..78322899
-
Mm9::chr6:78323220..78323230,+p@chr6:78323220..78323230
+
Mm9::chr9:65270641..65270655,-p3@Ostb


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

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
mucosa1.17e-3815
intestine3.26e-3431
intestinal mucosa2.90e-3213
anatomical wall2.90e-3213
wall of intestine2.90e-3213
gastrointestinal system mucosa2.90e-3213
organ component layer2.87e-2324
gastrointestinal system1.93e-2147
epithelium of mucosa8.56e-199
gastrointestinal system epithelium8.56e-199
intestinal epithelium8.56e-199
small intestine1.76e-154
simple columnar epithelium3.14e-1511
ileal mucosa1.36e-123
ileum1.36e-123
mucosa of small intestine1.36e-123
wall of small intestine1.36e-123
digestive system1.02e-08116
digestive tract1.02e-08116
primitive gut1.02e-08116
endoderm-derived structure1.66e-08118
endoderm1.66e-08118
presumptive endoderm1.66e-08118
gut-associated lymphoid tissue6.18e-082
mucosa-associated lymphoid tissue6.18e-082
lymphoid tissue6.18e-082
subdivision of digestive tract7.75e-07114


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)
MA0003.10.00250018
MA0004.10.206012
MA0006.10.315449
MA0007.10.195085
MA0009.10.576798
MA0014.10.00023305
MA0017.10.110433
MA0019.10.413421
MA0024.10.536784
MA0025.10.795679
MA0027.12.19092
MA0028.10.100975
MA0029.10.51708
MA0030.10.523021
MA0031.10.490954
MA0038.10.319246
MA0040.10.588314
MA0041.10.152751
MA0042.10.144042
MA0043.10.666547
MA0046.11.48203
MA0048.10.0160841
MA0050.10.235075
MA0051.10.326637
MA0052.12.47403
MA0055.10.00852128
MA0056.10
MA0057.10.0134783
MA0058.10.139612
MA0059.10.147666
MA0060.10.0544856
MA0061.10.0684878
MA0063.10
MA0066.12.30054
MA0067.10.902253
MA0068.10.349285
MA0069.10.59606
MA0070.10.587119
MA0071.10.234437
MA0072.10.579318
MA0073.17.72778e-11
MA0074.10.769072
MA0076.10.122031
MA0077.10.559443
MA0078.10.354249
MA0081.10.950346
MA0083.10.665805
MA0084.11.22195
MA0087.10.625609
MA0088.10.101322
MA0089.10
MA0090.10.534933
MA0091.10.215731
MA0092.10.535473
MA0093.10.105788
MA0095.10
MA0098.10
MA0100.10.271974
MA0101.10.153616
MA0103.10.751604
MA0105.10.0264543
MA0106.10.947606
MA0107.10.113208
MA0108.20.433384
MA0109.10
MA0111.10.191411
MA0113.10.337108
MA0114.10.0673452
MA0115.10.669167
MA0116.11.08249
MA0117.10.639033
MA0119.11.46173
MA0122.10.657549
MA0124.10.851049
MA0125.10.780232
MA0130.10
MA0131.10.409473
MA0132.10
MA0133.10
MA0135.10.700734
MA0136.10.805431
MA0139.10.0414323
MA0140.12.93488
MA0141.10.129134
MA0142.10.477975
MA0143.10.925469
MA0144.11.33989
MA0145.10.00768581
MA0146.10.0136869
MA0147.10.0750034
MA0148.10.622748
MA0149.10.157322
MA0062.20.0281188
MA0035.22.1267
MA0039.20.000117372
MA0138.20.402586
MA0002.21.03486
MA0137.20.400341
MA0104.20.0483916
MA0047.20.318614
MA0112.22.05946
MA0065.20.115152
MA0150.10.567944
MA0151.10
MA0152.10.318703
MA0153.10.716409
MA0154.10.366592
MA0155.10.010056
MA0156.10.385341
MA0157.10.4495
MA0158.10
MA0159.10.0802352
MA0160.10.220282
MA0161.10
MA0162.10.000667848
MA0163.10.000516301
MA0164.10.806095
MA0080.21.76688
MA0018.20.305372
MA0099.20.397135
MA0079.21.5775e-10
MA0102.21.27355
MA0258.10.478272
MA0259.10.0696308
MA0442.10
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