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MCL coexpression mm9:410: Difference between revisions

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{{MCL_coexpression_mm9
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activity;0.00624554867692982;76025!GO:0045134;uridine-diphosphatase activity;0.00624554867692982;76025!GO:0009191;ribonucleoside diphosphate catabolic process;0.0145657623539214;76025!GO:0009185;ribonucleoside diphosphate metabolic process;0.0145657623539214;76025!GO:0009134;nucleoside diphosphate catabolic process;0.0145657623539214;76025!GO:0009261;ribonucleotide catabolic process;0.0145657623539214;76025!GO:0017110;nucleoside-diphosphatase activity;0.0178312301087074;76025!GO:0009132;nucleoside diphosphate metabolic process;0.0202780234579342;76025!GO:0004623;phospholipase A2 activity;0.024939110969952;69836!GO:0009056;catabolic process;0.024939110969952;69836,76025!GO:0009166;nucleotide catabolic process;0.024939110969952;76025!GO:0005783;endoplasmic reticulum;0.0373538868321715;69836,76025!GO:0004620;phospholipase activity;0.0420619873103809;69836!GO:0005509;calcium ion 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|gostat_on_MCL_coexpression=GO:0004382;guanosine-diphosphatase activity;0.00624554867692982;76025!GO:0045134;uridine-diphosphatase activity;0.00624554867692982;76025!GO:0009191;ribonucleoside diphosphate catabolic process;0.0145657623539214;76025!GO:0009185;ribonucleoside diphosphate metabolic process;0.0145657623539214;76025!GO:0009134;nucleoside diphosphate catabolic process;0.0145657623539214;76025!GO:0009261;ribonucleotide catabolic process;0.0145657623539214;76025!GO:0017110;nucleoside-diphosphatase activity;0.0178312301087074;76025!GO:0009132;nucleoside diphosphate metabolic process;0.0202780234579342;76025!GO:0004623;phospholipase A2 activity;0.024939110969952;69836!GO:0009056;catabolic process;0.024939110969952;69836,76025!GO:0009166;nucleotide catabolic process;0.024939110969952;76025!GO:0005783;endoplasmic reticulum;0.0373538868321715;69836,76025!GO:0004620;phospholipase activity;0.0420619873103809;69836!GO:0005509;calcium ion binding;0.0420619873103809;69836,76025!
|ontology_enrichment_celltype=CL:0002563!1.93e-15!9;CL:0002251!1.93e-15!9;CL:0000239!9.15e-11!6;CL:0000677!9.15e-11!6;CL:0000212!9.15e-11!6;CL:0000584!9.15e-11!6;CL:0000075!4.43e-09!7;CL:0002076!2.14e-08!15;CL:0000066!3.39e-08!25;CL:0000627!9.95e-07!3;CL:0000682!9.95e-07!3
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|ontology_enrichment_uberon=UBERON:0005409!1.96e-41!47;UBERON:0000160!8.00e-41!31;UBERON:0000344!1.58e-25!15;UBERON:0001242!5.54e-22!13;UBERON:0000060!5.54e-22!13;UBERON:0001262!5.54e-22!13;UBERON:0004786!5.54e-22!13;UBERON:0004923!3.06e-20!24;UBERON:0003350!1.93e-15!9;UBERON:0004808!1.93e-15!9;UBERON:0001277!1.93e-15!9;UBERON:0004119!2.73e-14!118;UBERON:0000925!2.73e-14!118;UBERON:0006595!2.73e-14!118;UBERON:0001007!6.80e-13!116;UBERON:0001555!6.80e-13!116;UBERON:0007026!6.80e-13!116;UBERON:0000485!3.14e-12!11;UBERON:0004921!3.72e-11!114;UBERON:0002108!6.31e-08!4
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.559911,0.144778,1.06379,0.968139,0.201606,0.743966,0.146885,0.648449,0.0489646,0.665632,0.260789,0.340991,0.27987,0.295744,0,0.44163,0.260255,0.889823,0.278706,0.121654,0.178741,0.279154,0.0782709,0.149704,0.816061,2.15315,0.216938,0.103721,0.0796386,0.206597,0.531719,0.257084,0.756943,0.0880674,0.115941,0.0693463,0.257981,0.468707,0.0468666,0.265799,0.210373,1.27229,1.54071,0.0114677,0.183361,0.372907,0.228683,0.372601,0.343195,0.426383,0.323798,0.61775,0.661847,0.67813,0.28555,0.722962,0.25091,0.503803,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,0.451957,0.806865,1.14503,1.26964,1.00145,0.132733,0.353861,0.0896041,0.709559,0.105151,0.445056,0.756603,0.363297,0.498264,0.392419,0.640048,0.456892,0.330377,1.33467,0.602212,0.0199438,0.00700265,0.649538,0.377064,1.30447,0.873554,0.606796,0.543309,0.280055,2.24274,0.732474,0.14406,0.545856,0.373124,0.553251,0.523231,0.531465,0.645628,1.09221,0.425983,0.21005,0.478524,0.225669,0.127231,0.122746,1.48149,0.647285,0.124928,1.9433,0.880323,0.263255,0.0863406,1.69212,0.442771,0.51371,0.714636,0.398522,0.303371,0.951399,0.932468,0.501574,2.1318,0.53717,0.805419,0.284377,0.629874,0.546435,0.777296,1.46093,2.08424,0.00454122,0.167758,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.505775,0.27407,0.0818785,0.00366709,0.66331,0.754242,0.29573,0.739975,0.324625,0.0943424,0.483688,0.167568,0.862985,0.601424,0.501973,0.472328,0.417485,0.788653,0.242542,0.719527,0.171242
|tfbs_overrepresentation_jaspar=MA0003.1;0.012764,MA0004.1;0.191582,MA0006.1;0.0854592,MA0007.1;0.181021,MA0009.1;1.36778,MA0014.1;0.0191544,MA0017.1;1.11747,MA0019.1;0.394308,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;0.304586,MA0029.1;0.496599,MA0030.1;2.16915,MA0031.1;2.06383,MA0038.1;0.301835,MA0040.1;0.567108,MA0041.1;0.140298,MA0042.1;0.818083,MA0043.1;0.644695,MA0046.1;2.4507,MA0048.1;0.166935,MA0050.1;0.219748,MA0051.1;0.309072,MA0052.1;0.574473,MA0055.1;1.28357,MA0056.1;0,MA0057.1;0.297183,MA0058.1;0.127732,MA0059.1;0.13543,MA0060.1;0.0476793,MA0061.1;0.060618,MA0063.1;0,MA0066.1;0.293002,MA0067.1;0.879099,MA0068.1;0.153549,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.219128,MA0072.1;0.558195,MA0073.1;0.00524476,MA0074.1;0.731206,MA0076.1;0.110983,MA0077.1;0.538513,MA0078.1;0.336143,MA0081.1;0.150322,MA0083.1;0.643958,MA0084.1;1.1979,MA0087.1;0.604077,MA0088.1;0.185982,MA0089.1;0,MA0090.1;0.167748,MA0091.1;1.73143,MA0092.1;0.167962,MA0093.1;0.0955883,MA0095.1;0,MA0098.1;0,MA0100.1;0.255651,MA0101.1;0.141127,MA0103.1;0.702489,MA0105.1;0.0968542,MA0106.1;0.907208,MA0107.1;0.102611,MA0108.2;0.413973,MA0109.1;0,MA0111.1;1.00863,MA0113.1;0.855286,MA0114.1;2.28176,MA0115.1;1.56023,MA0116.1;0.603759,MA0117.1;0.617392,MA0119.1;0.141504,MA0122.1;0.635764,MA0124.1;0.828115,MA0125.1;0.757653,MA0130.1;0,MA0131.1;0.390422,MA0132.1;0,MA0133.1;0,MA0135.1;0.67864,MA0136.1;1.40201,MA0139.1;0.601065,MA0140.1;0.710317,MA0141.1;1.23603,MA0142.1;0.457961,MA0143.1;0.332773,MA0144.1;0.219807,MA0145.1;0.370702,MA0146.1;0.129919,MA0147.1;0.0666796,MA0148.1;2.46537,MA0149.1;0.144679,MA0062.2;0.250655,MA0035.2;1.32437,MA0039.2;0.0352926,MA0138.2;0.383644,MA0002.2;0.611367,MA0137.2;0.371067,MA0104.2;0.0420926,MA0047.2;2.25577,MA0112.2;0.584689,MA0065.2;2.33611,MA0150.1;0.53401,MA0151.1;0,MA0152.1;0.301303,MA0153.1;0.694211,MA0154.1;0.548533,MA0155.1;1.29165,MA0156.1;1.18829,MA0157.1;1.09863,MA0158.1;0,MA0159.1;0.534512,MA0160.1;0.205397,MA0161.1;0,MA0162.1;0.00359771,MA0163.1;0.0764052,MA0164.1;0.280556,MA0080.2;1.13886,MA0018.2;0.288261,MA0099.2;0.37828,MA0079.2;0.0168547,MA0102.2;1.24942,MA0258.1;0.0535937,MA0259.1;0.0616796,MA0442.1;0
}}

Latest revision as of 15:15, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115254412..115254425,+p6@Tspan8
Mm9::chr10:115254516..115254545,+p1@Tspan8
Mm9::chr10:115254555..115254570,+p3@Tspan8
Mm9::chr10:58866149..58866181,+p3@Pla2g12b
Mm9::chr11:118277148..118277155,-p9@Cant1
Mm9::chr12:56478126..56478145,+p@chr12:56478126..56478145
+
Mm9::chr15:78681575..78681587,-p@chr15:78681575..78681587
-
Mm9::chr15:78681809..78681834,-p@chr15:78681809..78681834
-
Mm9::chr15:78685947..78685966,-p1@Lgals2
Mm9::chr16:6698312..6698317,+p@chr16:6698312..6698317
+
Mm9::chr16:97881133..97881147,-p@chr16:97881133..97881147
-
Mm9::chr18:61795043..61795050,-p@chr18:61795043..61795050
-
Mm9::chr18:64820812..64820837,+p@chr18:64820812..64820837
+
Mm9::chr4:141157583..141157590,-p@chr4:141157583..141157590
-
Mm9::chr5:3515189..3515238,+p@chr5:3515189..3515238
+
Mm9::chr7:121989818..121989837,+p@chr7:121989818..121989837
+
Mm9::chr7:121989839..121989852,+p@chr7:121989839..121989852
+
Mm9::chr7:30041431..30041435,-p@chr7:30041431..30041435
-


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:0004382guanosine-diphosphatase activity0.00624554867692982
GO:0045134uridine-diphosphatase activity0.00624554867692982
GO:0009191ribonucleoside diphosphate catabolic process0.0145657623539214
GO:0009185ribonucleoside diphosphate metabolic process0.0145657623539214
GO:0009134nucleoside diphosphate catabolic process0.0145657623539214
GO:0009261ribonucleotide catabolic process0.0145657623539214
GO:0017110nucleoside-diphosphatase activity0.0178312301087074
GO:0009132nucleoside diphosphate metabolic process0.0202780234579342
GO:0004623phospholipase A2 activity0.024939110969952
GO:0009056catabolic process0.024939110969952
GO:0009166nucleotide catabolic process0.024939110969952
GO:0005783endoplasmic reticulum0.0373538868321715
GO:0004620phospholipase activity0.0420619873103809
GO:0005509calcium ion binding0.0420619873103809



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>


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)
MA0003.10.012764
MA0004.10.191582
MA0006.10.0854592
MA0007.10.181021
MA0009.11.36778
MA0014.10.0191544
MA0017.11.11747
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.10.304586
MA0029.10.496599
MA0030.12.16915
MA0031.12.06383
MA0038.10.301835
MA0040.10.567108
MA0041.10.140298
MA0042.10.818083
MA0043.10.644695
MA0046.12.4507
MA0048.10.166935
MA0050.10.219748
MA0051.10.309072
MA0052.10.574473
MA0055.11.28357
MA0056.10
MA0057.10.297183
MA0058.10.127732
MA0059.10.13543
MA0060.10.0476793
MA0061.10.060618
MA0063.10
MA0066.10.293002
MA0067.10.879099
MA0068.10.153549
MA0069.10.574784
MA0070.10.565924
MA0071.10.219128
MA0072.10.558195
MA0073.10.00524476
MA0074.10.731206
MA0076.10.110983
MA0077.10.538513
MA0078.10.336143
MA0081.10.150322
MA0083.10.643958
MA0084.11.1979
MA0087.10.604077
MA0088.10.185982
MA0089.10
MA0090.10.167748
MA0091.11.73143
MA0092.10.167962
MA0093.10.0955883
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.10.141127
MA0103.10.702489
MA0105.10.0968542
MA0106.10.907208
MA0107.10.102611
MA0108.20.413973
MA0109.10
MA0111.11.00863
MA0113.10.855286
MA0114.12.28176
MA0115.11.56023
MA0116.10.603759
MA0117.10.617392
MA0119.10.141504
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.10.67864
MA0136.11.40201
MA0139.10.601065
MA0140.10.710317
MA0141.11.23603
MA0142.10.457961
MA0143.10.332773
MA0144.10.219807
MA0145.10.370702
MA0146.10.129919
MA0147.10.0666796
MA0148.12.46537
MA0149.10.144679
MA0062.20.250655
MA0035.21.32437
MA0039.20.0352926
MA0138.20.383644
MA0002.20.611367
MA0137.20.371067
MA0104.20.0420926
MA0047.22.25577
MA0112.20.584689
MA0065.22.33611
MA0150.10.53401
MA0151.10
MA0152.10.301303
MA0153.10.694211
MA0154.10.548533
MA0155.11.29165
MA0156.11.18829
MA0157.11.09863
MA0158.10
MA0159.10.534512
MA0160.10.205397
MA0161.10
MA0162.10.00359771
MA0163.10.0764052
MA0164.10.280556
MA0080.21.13886
MA0018.20.288261
MA0099.20.37828
MA0079.20.0168547
MA0102.21.24942
MA0258.10.0535937
MA0259.10.0616796
MA0442.10
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