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MCL coexpression mm9:322: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002106!7.02e-07!6;UBERON:0004457!7.02e-07!6;UBERON:0000042!7.02e-07!6;UBERON:0004854!7.02e-07!6;UBERON:0009034!7.02e-07!6;UBERON:0002095!7.02e-07!6;UBERON:0004782!7.02e-07!6;UBERON:0003281!7.02e-07!6;UBERON:0009664!7.02e-07!6;UBERON:0002296!7.02e-07!6;UBERON:0005602!7.02e-07!6;UBERON:0001179!7.02e-07!6;UBERON:0006293!7.02e-07!6
|ontology_enrichment_uberon=UBERON:0002106!7.02e-07!6;UBERON:0004457!7.02e-07!6;UBERON:0000042!7.02e-07!6;UBERON:0004854!7.02e-07!6;UBERON:0009034!7.02e-07!6;UBERON:0002095!7.02e-07!6;UBERON:0004782!7.02e-07!6;UBERON:0003281!7.02e-07!6;UBERON:0009664!7.02e-07!6;UBERON:0002296!7.02e-07!6;UBERON:0005602!7.02e-07!6;UBERON:0001179!7.02e-07!6;UBERON:0006293!7.02e-07!6
|tfbs_overrepresentation_for_novel_motifs=0.653885,0.209046,0.591347,0.376992,0.968363,0.398187,0.538273,0.856869,0.185974,0.514602,0.469093,0.51908,0.171442,0.558008,0.672427,0,0.333505,0.140166,0.300991,0.785591,0.506129,0.123805,0.556548,0.961577,0.609268,1.77913,0.481302,0.138754,0.0537016,1.40329,0.13045,0.416414,0.587062,0.411336,0.378427,2.88646,0.128707,0.513348,0.492112,1.79812,0.0362834,0.824637,0.309443,0.04385,0.525057,0.729854,1.37063,1.42729,0.13582,0.445033,0.85605,0.228569,0.499975,0.538915,0.554419,0.195691,0.212299,0.166575,0.258637,0.194311,1.0329,0.66335,0.396933,0.836197,0.20328,0.342909,0.678037,1.00855,0.395762,0.867464,0.257427,0.180319,0.0258637,0.584436,0.660318,0.386101,0.411083,0.263199,0.38541,0.515733,0.596875,0.347414,0.234292,0.322554,0.48244,0.0253614,0.214763,0.531868,0.275409,1.16606,0.74267,0.486763,0.427209,0.637867,0.255947,0.224705,0.332811,0.429584,0.271907,0.436104,0.0315985,0.416179,0.523506,0.320141,0.31931,0.415447,0.367229,0.145827,0.0700831,0.510198,0.307666,0.525078,0.068441,0.477109,0.749248,0.142314,0.271739,0.382478,0.334542,0.125121,0.589296,0.294572,1.78604,0.726359,0.800032,0.388466,1.05137,0.421488,0.67664,0.361313,0.508573,0.366432,0.649498,0.205008,1.81381,0.057122,0.328991,0.828232,0.723554,1.52843,1.13499,0.682379,0.219341,1.0886,0.31422,0.133739,0.752825,1.4892,0.332285,0.346748,0.340986,0.101696,0.540306,0.235071,0.590347,0.613593,0.229288,0.179236,0.0944954,0.0999378,0.732404,0.481698,1.00924,0.0910449,0.837993,0.578243,0.302433,0.173777,0.116093
|tfbs_overrepresentation_for_novel_motifs=0.653885,0.209046,0.591347,0.376992,0.968363,0.398187,0.538273,0.856869,0.185974,0.514602,0.469093,0.51908,0.171442,0.558008,0.672427,0,0.333505,0.140166,0.300991,0.785591,0.506129,0.123805,0.556548,0.961577,0.609268,1.77913,0.481302,0.138754,0.0537016,1.40329,0.13045,0.416414,0.587062,0.411336,0.378427,2.88646,0.128707,0.513348,0.492112,1.79812,0.0362834,0.824637,0.309443,0.04385,0.525057,0.729854,1.37063,1.42729,0.13582,0.445033,0.85605,0.228569,0.499975,0.538915,0.554419,0.195691,0.212299,0.166575,0.258637,0.194311,1.0329,0.66335,0.396933,0.836197,0.20328,0.342909,0.678037,1.00855,0.395762,0.867464,0.257427,0.180319,0.0258637,0.584436,0.660318,0.386101,0.411083,0.263199,0.38541,0.515733,0.596875,0.347414,0.234292,0.322554,0.48244,0.0253614,0.214763,0.531868,0.275409,1.16606,0.74267,0.486763,0.427209,0.637867,0.255947,0.224705,0.332811,0.429584,0.271907,0.436104,0.0315985,0.416179,0.523506,0.320141,0.31931,0.415447,0.367229,0.145827,0.0700831,0.510198,0.307666,0.525078,0.068441,0.477109,0.749248,0.142314,0.271739,0.382478,0.334542,0.125121,0.589296,0.294572,1.78604,0.726359,0.800032,0.388466,1.05137,0.421488,0.67664,0.361313,0.508573,0.366432,0.649498,0.205008,1.81381,0.057122,0.328991,0.828232,0.723554,1.52843,1.13499,0.682379,0.219341,1.0886,0.31422,0.133739,0.752825,1.4892,0.332285,0.346748,0.340986,0.101696,0.540306,0.235071,0.590347,0.613593,0.229288,0.179236,0.0944954,0.0999378,0.732404,0.481698,1.00924,0.0910449,0.837993,0.578243,0.302433,0.173777,0.116093
|tfbs_overrepresentation_jaspar=MA0003.1;0.283482,MA0004.1;0.377695,MA0006.1;0.161227,MA0007.1;0.356106,MA0009.1;0.438777,MA0014.1;0.175553,MA0017.1;1.14182,MA0019.1;0.290797,MA0024.1;1.03781,MA0025.1;0.645374,MA0027.1;2.02409,MA0028.1;0.38997,MA0029.1;0.383872,MA0030.1;0.389298,MA0031.1;0.360121,MA0038.1;0.209603,MA0040.1;0.449452,MA0041.1;0.0795363,MA0042.1;0.0734808,MA0043.1;0.522621,MA0046.1;0.469568,MA0048.1;0.144574,MA0050.1;0.435264,MA0051.1;0.215828,MA0052.1;0.456356,MA0055.1;0.788992,MA0056.1;0,MA0057.1;1.11417,MA0058.1;0.902679,MA0059.1;0.945113,MA0060.1;0.215905,MA0061.1;0.111204,MA0063.1;0,MA0066.1;0.20204,MA0067.1;0.748059,MA0068.1;0.0562148,MA0069.1;0.456647,MA0070.1;0.448343,MA0071.1;0.433998,MA0072.1;0.44111,MA0073.1;0.0123123,MA0074.1;0.178027,MA0076.1;0.808369,MA0077.1;1.08318,MA0078.1;0.672666,MA0081.1;0.293354,MA0083.1;0.521922,MA0084.1;1.0607,MA0087.1;0.484199,MA0088.1;0.546599,MA0089.1;0,MA0090.1;0.32897,MA0091.1;0.125983,MA0092.1;0.100239,MA0093.1;0.718874,MA0095.1;0,MA0098.1;0,MA0100.1;0.170518,MA0101.1;0.274567,MA0103.1;0.447794,MA0105.1;0.0364735,MA0106.1;0.244965,MA0107.1;0.196036,MA0108.2;0.308463,MA0109.1;0,MA0111.1;1.71244,MA0113.1;0.224694,MA0114.1;0.49485,MA0115.1;2.24372,MA0116.1;0.161005,MA0117.1;1.24255,MA0119.1;0.0804194,MA0122.1;0.514153,MA0124.1;0.698593,MA0125.1;0.630583,MA0130.1;0,MA0131.1;0.287321,MA0132.1;0,MA0133.1;0,MA0135.1;0.554905,MA0136.1;0.191208,MA0139.1;0.329061,MA0140.1;5.53633,MA0141.1;0.491507,MA0142.1;0.34839,MA0143.1;0.236381,MA0144.1;0.0265945,MA0145.1;0.414538,MA0146.1;0.0544088,MA0147.1;0.293895,MA0148.1;0.127756,MA0149.1;0.0827548,MA0062.2;0.645231,MA0035.2;2.99279,MA0039.2;1.17949,MA0138.2;0.281269,MA0002.2;0.851792,MA0137.2;0.062153,MA0104.2;0.621766,MA0047.2;0.209072,MA0112.2;0.00796502,MA0065.2;0.416515,MA0150.1;0.355945,MA0151.1;0,MA0152.1;0.209147,MA0153.1;0.569763,MA0154.1;0.263102,MA0155.1;0.318388,MA0156.1;0.464199,MA0157.1;0.322822,MA0158.1;0,MA0159.1;0.313465,MA0160.1;0.129493,MA0161.1;0,MA0162.1;0.600553,MA0163.1;0.112891,MA0164.1;0.191451,MA0080.2;0.436302,MA0018.2;0.197998,MA0099.2;0.276491,MA0079.2;0.597853,MA0102.2;1.11159,MA0258.1;0.097198,MA0259.1;0.273672,MA0442.1;0
}}
}}

Revision as of 11:33, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79229739..79229762,-p3@Rnf126
Mm9::chr15:103082088..103082136,-p2@Nfe2
Mm9::chr15:12754339..12754359,-p2@6030458C11Rik
Mm9::chr2:172859030..172859072,-p@chr2:172859030..172859072
-
Mm9::chr2:172859573..172859595,+p@chr2:172859573..172859595
+
Mm9::chr2:28477452..28477483,-p1@Gfi1b
Mm9::chr3:101969817..101969832,-p3@Vangl1
Mm9::chr3:153512829..153512857,+p@chr3:153512829..153512857
+
Mm9::chr5:74461687..74461700,-p5@Usp46
Mm9::chr6:86028031..86028057,+p2@Add2
Mm9::chr6:86028064..86028083,+p4@Add2
Mm9::chr6:90980074..90980078,-p5@Nup210
Mm9::chr7:134910987..134911000,+p@chr7:134910987..134911000
+
Mm9::chr7:150191643..150191662,+p5@Tspan32
Mm9::chr7:150191675..150191689,+p6@Tspan32
Mm9::chr7:26472857..26472901,+p@chr7:26472857..26472901
+
Mm9::chr7:4693422..4693437,+p6@Suv420h2
Mm9::chr7:51723421..51723440,+p1@Josd2
Mm9::chr7:87343450..87343514,+p2@Sema4b
Mm9::chr9:21766830..21766841,-p@chr9:21766830..21766841
-
Mm9::chr9:21940098..21940109,-p10@Acp5
Mm9::chr9:21940119..21940168,-p4@Acp5
Mm9::chrX:45696879..45696900,+p3@Bcorl1
Mm9::chrX:7544943..7545001,-p1@Gata1
Mm9::chrX:7849399..7849430,+p@chrX:7849399..7849430
+


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>

Cell Type
Ontology termp-valuen
megakaryocyte-erythroid progenitor cell1.60e-089

Uber Anatomy
Ontology termp-valuen
spleen7.02e-076
cavity lining7.02e-076
serous membrane7.02e-076
gastrointestinal system mesentery7.02e-076
stomach region7.02e-076
mesentery7.02e-076
gastrointestinal system serosa7.02e-076
mesentery of stomach7.02e-076
gut mesentery7.02e-076
dorsal mesentery7.02e-076
dorsal mesogastrium7.02e-076
peritoneal cavity7.02e-076
spleen primordium7.02e-076


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)
MA0003.10.283482
MA0004.10.377695
MA0006.10.161227
MA0007.10.356106
MA0009.10.438777
MA0014.10.175553
MA0017.11.14182
MA0019.10.290797
MA0024.11.03781
MA0025.10.645374
MA0027.12.02409
MA0028.10.38997
MA0029.10.383872
MA0030.10.389298
MA0031.10.360121
MA0038.10.209603
MA0040.10.449452
MA0041.10.0795363
MA0042.10.0734808
MA0043.10.522621
MA0046.10.469568
MA0048.10.144574
MA0050.10.435264
MA0051.10.215828
MA0052.10.456356
MA0055.10.788992
MA0056.10
MA0057.11.11417
MA0058.10.902679
MA0059.10.945113
MA0060.10.215905
MA0061.10.111204
MA0063.10
MA0066.10.20204
MA0067.10.748059
MA0068.10.0562148
MA0069.10.456647
MA0070.10.448343
MA0071.10.433998
MA0072.10.44111
MA0073.10.0123123
MA0074.10.178027
MA0076.10.808369
MA0077.11.08318
MA0078.10.672666
MA0081.10.293354
MA0083.10.521922
MA0084.11.0607
MA0087.10.484199
MA0088.10.546599
MA0089.10
MA0090.10.32897
MA0091.10.125983
MA0092.10.100239
MA0093.10.718874
MA0095.10
MA0098.10
MA0100.10.170518
MA0101.10.274567
MA0103.10.447794
MA0105.10.0364735
MA0106.10.244965
MA0107.10.196036
MA0108.20.308463
MA0109.10
MA0111.11.71244
MA0113.10.224694
MA0114.10.49485
MA0115.12.24372
MA0116.10.161005
MA0117.11.24255
MA0119.10.0804194
MA0122.10.514153
MA0124.10.698593
MA0125.10.630583
MA0130.10
MA0131.10.287321
MA0132.10
MA0133.10
MA0135.10.554905
MA0136.10.191208
MA0139.10.329061
MA0140.15.53633
MA0141.10.491507
MA0142.10.34839
MA0143.10.236381
MA0144.10.0265945
MA0145.10.414538
MA0146.10.0544088
MA0147.10.293895
MA0148.10.127756
MA0149.10.0827548
MA0062.20.645231
MA0035.22.99279
MA0039.21.17949
MA0138.20.281269
MA0002.20.851792
MA0137.20.062153
MA0104.20.621766
MA0047.20.209072
MA0112.20.00796502
MA0065.20.416515
MA0150.10.355945
MA0151.10
MA0152.10.209147
MA0153.10.569763
MA0154.10.263102
MA0155.10.318388
MA0156.10.464199
MA0157.10.322822
MA0158.10
MA0159.10.313465
MA0160.10.129493
MA0161.10
MA0162.10.600553
MA0163.10.112891
MA0164.10.191451
MA0080.20.436302
MA0018.20.197998
MA0099.20.276491
MA0079.20.597853
MA0102.21.11159
MA0258.10.097198
MA0259.10.273672
MA0442.10
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