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MCL coexpression mm9:127: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0005172!2.34e-09!49;UBERON:0005173!2.34e-09!49;UBERON:0002417!2.34e-09!49;UBERON:0000916!2.34e-09!49;UBERON:0009569!3.49e-09!66;UBERON:0002106!7.01e-08!6;UBERON:0004457!7.01e-08!6;UBERON:0000042!7.01e-08!6;UBERON:0004854!7.01e-08!6;UBERON:0009034!7.01e-08!6;UBERON:0002095!7.01e-08!6;UBERON:0004782!7.01e-08!6;UBERON:0003281!7.01e-08!6;UBERON:0009664!7.01e-08!6;UBERON:0002296!7.01e-08!6;UBERON:0005602!7.01e-08!6;UBERON:0001179!7.01e-08!6;UBERON:0006293!7.01e-08!6
|ontology_enrichment_uberon=UBERON:0005172!2.34e-09!49;UBERON:0005173!2.34e-09!49;UBERON:0002417!2.34e-09!49;UBERON:0000916!2.34e-09!49;UBERON:0009569!3.49e-09!66;UBERON:0002106!7.01e-08!6;UBERON:0004457!7.01e-08!6;UBERON:0000042!7.01e-08!6;UBERON:0004854!7.01e-08!6;UBERON:0009034!7.01e-08!6;UBERON:0002095!7.01e-08!6;UBERON:0004782!7.01e-08!6;UBERON:0003281!7.01e-08!6;UBERON:0009664!7.01e-08!6;UBERON:0002296!7.01e-08!6;UBERON:0005602!7.01e-08!6;UBERON:0001179!7.01e-08!6;UBERON:0006293!7.01e-08!6
|tfbs_overrepresentation_for_novel_motifs=0.007425,6.30687e-05,0.00486943,1.68152,1.55835,0.835743,0.00822381,0.378062,0.563212,0.000963677,0.0836031,0.634294,0.130272,0.131687,0.755666,0,0.388087,0.13519,0.216538,0.0347223,0.700794,0.0492892,0.0092913,0.641573,0.511434,0.0597709,0.0805636,0.0656875,0.00599837,0.0441764,0.0176367,0.078607,0.00612304,0.0819598,0.00329417,0.14813,0.000240662,0.106219,0.421466,0.0230828,0.467284,0.018765,0.185506,0.0293442,5.85093e-06,0.00176534,0.109616,0.0248536,0.609965,0.0197428,0.0402161,0.0735104,0.0919648,0.143257,0.464157,0.0504953,1.03534,0.211283,0.0381962,0.00989481,0.0710873,0.0787402,0.02082,0.0373377,0.0113137,0.181923,1.22906,0.496484,0.244227,0.378121,0.000440566,0.0540539,0.00103994,0.510073,1.75429e-05,0.0411942,0.0501051,0.25046,0.500074,0.723442,0.864678,0.0499545,1.73551,0.589041,0.111445,8.77831e-11,11.6539,0.763537,0.112996,0.636091,0.280755,0.113764,0.595307,0.255195,0.28747,0.576082,0.0772598,0.0847546,0.025987,0.093515,0.704424,0.569787,0.134261,0.36056,1.91049,0.018667,0.0575508,0.301704,0.0350864,0.000311148,0.0644888,0.135169,0.240885,0.0875004,0.285679,0.139333,3.99134e-05,0.364097,0.172689,0.679001,0.517612,0.89441,0.0606479,0.757381,0.324509,0.0662658,0.263966,0.0809505,0.23284,0.100708,0.396364,0.197845,0.613211,0.522204,0.813947,0.136143,1.11957,0.430496,0.266598,0.975438,0.608054,0.236891,0.17515,0.281676,0.15104,0.260545,0.503654,0.937873,0.630248,0.00229017,0.00320448,2.11434e-10,0.442973,0.0594663,0.151714,1.05855,0.191397,0.132349,3.23969,0.0766271,0.273125,0.358083,0.507721,0.0627941,0.968702,0.763049,0.0315395,0.402392,5.10395e-08
|tfbs_overrepresentation_for_novel_motifs=0.007425,6.30687e-05,0.00486943,1.68152,1.55835,0.835743,0.00822381,0.378062,0.563212,0.000963677,0.0836031,0.634294,0.130272,0.131687,0.755666,0,0.388087,0.13519,0.216538,0.0347223,0.700794,0.0492892,0.0092913,0.641573,0.511434,0.0597709,0.0805636,0.0656875,0.00599837,0.0441764,0.0176367,0.078607,0.00612304,0.0819598,0.00329417,0.14813,0.000240662,0.106219,0.421466,0.0230828,0.467284,0.018765,0.185506,0.0293442,5.85093e-06,0.00176534,0.109616,0.0248536,0.609965,0.0197428,0.0402161,0.0735104,0.0919648,0.143257,0.464157,0.0504953,1.03534,0.211283,0.0381962,0.00989481,0.0710873,0.0787402,0.02082,0.0373377,0.0113137,0.181923,1.22906,0.496484,0.244227,0.378121,0.000440566,0.0540539,0.00103994,0.510073,1.75429e-05,0.0411942,0.0501051,0.25046,0.500074,0.723442,0.864678,0.0499545,1.73551,0.589041,0.111445,8.77831e-11,11.6539,0.763537,0.112996,0.636091,0.280755,0.113764,0.595307,0.255195,0.28747,0.576082,0.0772598,0.0847546,0.025987,0.093515,0.704424,0.569787,0.134261,0.36056,1.91049,0.018667,0.0575508,0.301704,0.0350864,0.000311148,0.0644888,0.135169,0.240885,0.0875004,0.285679,0.139333,3.99134e-05,0.364097,0.172689,0.679001,0.517612,0.89441,0.0606479,0.757381,0.324509,0.0662658,0.263966,0.0809505,0.23284,0.100708,0.396364,0.197845,0.613211,0.522204,0.813947,0.136143,1.11957,0.430496,0.266598,0.975438,0.608054,0.236891,0.17515,0.281676,0.15104,0.260545,0.503654,0.937873,0.630248,0.00229017,0.00320448,2.11434e-10,0.442973,0.0594663,0.151714,1.05855,0.191397,0.132349,3.23969,0.0766271,0.273125,0.358083,0.507721,0.0627941,0.968702,0.763049,0.0315395,0.402392,5.10395e-08
|tfbs_overrepresentation_jaspar=MA0003.1;4.82164e-17,MA0004.1;0.0456278,MA0006.1;0.000587132,MA0007.1;0.185832,MA0009.1;0.299466,MA0014.1;4.82164e-16,MA0017.1;0.365108,MA0019.1;0.302272,MA0024.1;0.0720757,MA0025.1;0.211183,MA0027.1;1.45914,MA0028.1;7.96127e-05,MA0029.1;3.65156,MA0030.1;0.23626,MA0031.1;0.20148,MA0038.1;0.319884,MA0040.1;0.647552,MA0041.1;2.43956,MA0042.1;3.07183,MA0043.1;0.133751,MA0046.1;2.29544,MA0048.1;6.82594e-06,MA0050.1;0.687655,MA0051.1;0.336648,MA0052.1;1.10298,MA0055.1;0.00027117,MA0056.1;0,MA0057.1;6.26964e-05,MA0058.1;0.0354975,MA0059.1;0.28326,MA0060.1;4.59436e-05,MA0061.1;0.0458025,MA0063.1;0,MA0066.1;0.0111108,MA0067.1;0.284786,MA0068.1;0.114549,MA0069.1;0.323475,MA0070.1;0.0938644,MA0071.1;1.6086,MA0072.1;1.55421,MA0073.1;1.1653,MA0074.1;0.113685,MA0076.1;0.000197646,MA0077.1;0.986453,MA0078.1;0.660625,MA0081.1;0.119724,MA0083.1;0.133349,MA0084.1;0.541963,MA0087.1;0.361597,MA0088.1;0.00384641,MA0089.1;0,MA0090.1;0.851765,MA0091.1;0.589883,MA0092.1;0.272402,MA0093.1;0.0144542,MA0095.1;0,MA0098.1;0,MA0100.1;0.0357305,MA0101.1;0.187899,MA0103.1;0.0484741,MA0105.1;6.23312e-05,MA0106.1;0.0194129,MA0107.1;0.256199,MA0108.2;0.336996,MA0109.1;0,MA0111.1;0.304969,MA0113.1;0.899681,MA0114.1;0.0808273,MA0115.1;0.135175,MA0116.1;0.00996824,MA0117.1;0.119208,MA0119.1;0.0175438,MA0122.1;0.128913,MA0124.1;0.693884,MA0125.1;0.582754,MA0130.1;0,MA0131.1;0.0302214,MA0132.1;0,MA0133.1;0,MA0135.1;0.907201,MA0136.1;0.04768,MA0139.1;0.0106512,MA0140.1;0.220471,MA0141.1;0.666659,MA0142.1;0.737163,MA0143.1;0.393608,MA0144.1;0.0224056,MA0145.1;2.35426e-05,MA0146.1;6.95559e-11,MA0147.1;0.028898,MA0148.1;0.846315,MA0149.1;0.482042,MA0062.2;1.84549e-06,MA0035.2;0.401294,MA0039.2;4.82164e-17,MA0138.2;0.0285179,MA0002.2;0.372804,MA0137.2;0.120312,MA0104.2;0.00266997,MA0047.2;0.538264,MA0112.2;0.000231703,MA0065.2;0.011803,MA0150.1;1.92409,MA0151.1;0,MA0152.1;0.538558,MA0153.1;0.945117,MA0154.1;0.185953,MA0155.1;6.86395e-05,MA0156.1;0.00751247,MA0157.1;0.366035,MA0158.1;0,MA0159.1;0.00547548,MA0160.1;0.860637,MA0161.1;0,MA0162.1;1.92865e-16,MA0163.1;1.78338e-10,MA0164.1;0.272432,MA0080.2;0.0184183,MA0018.2;0.0519751,MA0099.2;0.275026,MA0079.2;0,MA0102.2;0.587087,MA0258.1;0.000473723,MA0259.1;0.00324152,MA0442.1;0
}}
}}

Revision as of 11:13, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126739863..126739868,-p@chr10:126739863..126739868
-
Mm9::chr10:39792798..39792802,-p@chr10:39792798..39792802
-
Mm9::chr10:39848027..39848066,-p@chr10:39848027..39848066
-
Mm9::chr10:39849108..39849112,-p@chr10:39849108..39849112
-
Mm9::chr10:39853934..39853938,-p@chr10:39853934..39853938
-
Mm9::chr10:43323188..43323193,+p@chr10:43323188..43323193
+
Mm9::chr10:75401133..75401138,-p4@Mmp11
Mm9::chr11:102217751..102217764,-p@chr11:102217751..102217764
-
Mm9::chr11:58739690..58739702,+p@chr11:58739690..58739702
+
Mm9::chr11:61870736..61870740,+p@chr11:61870736..61870740
+
Mm9::chr12:27129494..27129506,-p@chr12:27129494..27129506
-
Mm9::chr12:58108811..58108812,-p@chr12:58108811..58108812
-
Mm9::chr12:58218618..58218621,-p@chr12:58218618..58218621
-
Mm9::chr12:58282440..58282448,-p@chr12:58282440..58282448
-
Mm9::chr12:77697688..77697709,-p@chr12:77697688..77697709
-
Mm9::chr12:77744715..77744730,-p@chr12:77744715..77744730
-
Mm9::chr12:77744806..77744822,-p@chr12:77744806..77744822
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Mm9::chr12:77744906..77744909,-p@chr12:77744906..77744909
-
Mm9::chr12:77769683..77769696,-p@chr12:77769683..77769696
-
Mm9::chr14:69860489..69860501,-p@chr14:69860489..69860501
-
Mm9::chr14:69861140..69861152,-p@chr14:69861140..69861152
-
Mm9::chr14:69862321..69862339,-p@chr14:69862321..69862339
-
Mm9::chr14:69862387..69862408,-p@chr14:69862387..69862408
-
Mm9::chr14:69862407..69862422,+p@chr14:69862407..69862422
+
Mm9::chr14:69862514..69862531,-p@chr14:69862514..69862531
-
Mm9::chr14:69862673..69862687,-p@chr14:69862673..69862687
-
Mm9::chr14:69865531..69865543,-p@chr14:69865531..69865543
-
Mm9::chr14:70024076..70024084,-p@chr14:70024076..70024084
-
Mm9::chr14:70036651..70036662,-p@chr14:70036651..70036662
-
Mm9::chr14:70036832..70036836,-p@chr14:70036832..70036836
-
Mm9::chr14:70039992..70040010,-p1@ENSMUST00000137838
p1@uc007uml.1
p1@uc007umm.1
Mm9::chr14:70054274..70054277,-p@chr14:70054274..70054277
-
Mm9::chr15:9002932..9002936,+p@chr15:9002932..9002936
+
Mm9::chr16:32621657..32621659,+p@chr16:32621657..32621659
+
Mm9::chr16:58679815..58679836,+p@chr16:58679815..58679836
+
Mm9::chr17:33839242..33839247,-p@chr17:33839242..33839247
-
Mm9::chr17:40953655..40953657,+p@chr17:40953655..40953657
+
Mm9::chr18:32713311..32713327,-p@chr18:32713311..32713327
-
Mm9::chr18:56948938..56948941,-p@chr18:56948938..56948941
-
Mm9::chr18:57006002..57006006,-p@chr18:57006002..57006006
-
Mm9::chr18:57013063..57013067,-p@chr18:57013063..57013067
-
Mm9::chr18:57027252..57027257,-p@chr18:57027252..57027257
-
Mm9::chr18:57078886..57078909,-p@chr18:57078886..57078909
-
Mm9::chr18:64617530..64617540,-p@chr18:64617530..64617540
-
Mm9::chr18:78298147..78298161,-p@chr18:78298147..78298161
-
Mm9::chr18:78298215..78298226,-p@chr18:78298215..78298226
-
Mm9::chr1:134254820..134254833,-p@chr1:134254820..134254833
-
Mm9::chr1:176121187..176121193,+p@chr1:176121187..176121193
+
Mm9::chr2:28476193..28476196,-p@chr2:28476193..28476196
-
Mm9::chr3:127633903..127633908,+p@chr3:127633903..127633908
+
Mm9::chr3:69144411..69144415,+p@chr3:69144411..69144415
+
Mm9::chr4:131609374..131609380,-p@chr4:131609374..131609380
-
Mm9::chr4:154295668..154295710,-p@chr4:154295668..154295710
-
Mm9::chr5:108216274..108216278,-p@chr5:108216274..108216278
-
Mm9::chr5:121738120..121738126,+p@chr5:121738120..121738126
+
Mm9::chr6:116304887..116304888,+p@chr6:116304887..116304888
+
Mm9::chr6:29649033..29649037,+p@chr6:29649033..29649037
+
Mm9::chr6:39362220..39362222,-p@chr6:39362220..39362222
-
Mm9::chr6:41637516..41637522,-p@chr6:41637516..41637522
-
Mm9::chr6:41643299..41643303,-p@chr6:41643299..41643303
-
Mm9::chr6:41649928..41649929,-p@chr6:41649928..41649929
-
Mm9::chr6:41650725..41650728,-p@chr6:41650725..41650728
-
Mm9::chr6:60724229..60724231,-p@chr6:60724229..60724231
-
Mm9::chr6:60738509..60738531,-p@chr6:60738509..60738531
-
Mm9::chr6:60763552..60763560,-p@chr6:60763552..60763560
-
Mm9::chr6:72345772..72345778,+p@chr6:72345772..72345778
+
Mm9::chr7:122807568..122807572,-p@chr7:122807568..122807572
-
Mm9::chr7:122841698..122841720,-p@chr7:122841698..122841720
-
Mm9::chr7:122866252..122866255,-p@chr7:122866252..122866255
-
Mm9::chr7:122868520..122868523,-p@chr7:122868520..122868523
-
Mm9::chr7:122881448..122881450,-p@chr7:122881448..122881450
-
Mm9::chr7:122985134..122985138,-p@chr7:122985134..122985138
-
Mm9::chr7:139954203..139954207,-p@chr7:139954203..139954207
-
Mm9::chr7:142892578..142892585,-p@chr7:142892578..142892585
-
Mm9::chr7:28246459..28246462,+p@chr7:28246459..28246462
+
Mm9::chr7:86065014..86065026,+p@chr7:86065014..86065026
+
Mm9::chr8:108295154..108295168,-p@chr8:108295154..108295168
-
Mm9::chr8:24233749..24233753,+p@chr8:24233749..24233753
+
Mm9::chr8:24253451..24253470,+p@chr8:24253451..24253470
+
Mm9::chr8:24253562..24253567,+p@chr8:24253562..24253567
+
Mm9::chr8:24253720..24253741,+p@chr8:24253720..24253741
+
Mm9::chr8:24259061..24259087,+p@chr8:24259061..24259087
+
Mm9::chr8:36665209..36665213,+p@chr8:36665209..36665213
+
Mm9::chr9:107974393..107974397,-p@chr9:107974393..107974397
-
Mm9::chr9:66037058..66037063,+p@chr9:66037058..66037063
+
Mm9::chr9:66221055..66221059,+p@chr9:66221055..66221059
+
Mm9::chr9:66242130..66242136,+p@chr9:66242130..66242136
+
Mm9::chr9:66316426..66316430,+p3@Herc1
Mm9::chr9:70506339..70506344,+p@chr9:70506339..70506344
+
Mm9::chr9:70577717..70577719,+p@chr9:70577717..70577719
+
Mm9::chr9:96168897..96168941,+p@chr9:96168897..96168941
+
Mm9::chr9:96179288..96179292,+p@chr9:96179288..96179292
+
Mm9::chr9:96188793..96188797,+p@chr9:96188793..96188797
+


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:0048250mitochondrial iron ion transport0.0289212047784927
GO:0042886amide transport0.0289212047784927
GO:0015840urea transport0.0289212047784927
GO:0042887amide transporter activity0.0289212047784927
GO:0015204urea transmembrane transporter activity0.0289212047784927
GO:0005381iron ion transmembrane transporter activity0.0481835240811629



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>


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)
MA0003.14.82164e-17
MA0004.10.0456278
MA0006.10.000587132
MA0007.10.185832
MA0009.10.299466
MA0014.14.82164e-16
MA0017.10.365108
MA0019.10.302272
MA0024.10.0720757
MA0025.10.211183
MA0027.11.45914
MA0028.17.96127e-05
MA0029.13.65156
MA0030.10.23626
MA0031.10.20148
MA0038.10.319884
MA0040.10.647552
MA0041.12.43956
MA0042.13.07183
MA0043.10.133751
MA0046.12.29544
MA0048.16.82594e-06
MA0050.10.687655
MA0051.10.336648
MA0052.11.10298
MA0055.10.00027117
MA0056.10
MA0057.16.26964e-05
MA0058.10.0354975
MA0059.10.28326
MA0060.14.59436e-05
MA0061.10.0458025
MA0063.10
MA0066.10.0111108
MA0067.10.284786
MA0068.10.114549
MA0069.10.323475
MA0070.10.0938644
MA0071.11.6086
MA0072.11.55421
MA0073.11.1653
MA0074.10.113685
MA0076.10.000197646
MA0077.10.986453
MA0078.10.660625
MA0081.10.119724
MA0083.10.133349
MA0084.10.541963
MA0087.10.361597
MA0088.10.00384641
MA0089.10
MA0090.10.851765
MA0091.10.589883
MA0092.10.272402
MA0093.10.0144542
MA0095.10
MA0098.10
MA0100.10.0357305
MA0101.10.187899
MA0103.10.0484741
MA0105.16.23312e-05
MA0106.10.0194129
MA0107.10.256199
MA0108.20.336996
MA0109.10
MA0111.10.304969
MA0113.10.899681
MA0114.10.0808273
MA0115.10.135175
MA0116.10.00996824
MA0117.10.119208
MA0119.10.0175438
MA0122.10.128913
MA0124.10.693884
MA0125.10.582754
MA0130.10
MA0131.10.0302214
MA0132.10
MA0133.10
MA0135.10.907201
MA0136.10.04768
MA0139.10.0106512
MA0140.10.220471
MA0141.10.666659
MA0142.10.737163
MA0143.10.393608
MA0144.10.0224056
MA0145.12.35426e-05
MA0146.16.95559e-11
MA0147.10.028898
MA0148.10.846315
MA0149.10.482042
MA0062.21.84549e-06
MA0035.20.401294
MA0039.24.82164e-17
MA0138.20.0285179
MA0002.20.372804
MA0137.20.120312
MA0104.20.00266997
MA0047.20.538264
MA0112.20.000231703
MA0065.20.011803
MA0150.11.92409
MA0151.10
MA0152.10.538558
MA0153.10.945117
MA0154.10.185953
MA0155.16.86395e-05
MA0156.10.00751247
MA0157.10.366035
MA0158.10
MA0159.10.00547548
MA0160.10.860637
MA0161.10
MA0162.11.92865e-16
MA0163.11.78338e-10
MA0164.10.272432
MA0080.20.0184183
MA0018.20.0519751
MA0099.20.275026
MA0079.20
MA0102.20.587087
MA0258.10.000473723
MA0259.10.00324152
MA0442.10
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