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MCL coexpression mm9:393: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!4.63e-25!73;UBERON:0002346!7.14e-24!64;UBERON:0003075!7.14e-24!64;UBERON:0007284!7.14e-24!64;UBERON:0001016!8.90e-24!75;UBERON:0004121!1.70e-22!95;UBERON:0000924!1.70e-22!95;UBERON:0006601!1.70e-22!95;UBERON:0010314!3.18e-21!92;UBERON:0000073!3.67e-21!54;UBERON:0010371!9.44e-20!73;UBERON:0001049!1.82e-19!52;UBERON:0005068!1.82e-19!52;UBERON:0006241!1.82e-19!52;UBERON:0007135!1.82e-19!52;UBERON:0003056!1.95e-19!49;UBERON:0002020!4.61e-17!34;UBERON:0000955!9.26e-17!47;UBERON:0006238!9.26e-17!47;UBERON:0002616!3.09e-16!46;UBERON:0003080!5.17e-16!40;UBERON:0002780!1.30e-15!39;UBERON:0001890!1.30e-15!39;UBERON:0006240!1.30e-15!39;UBERON:0003528!7.02e-14!29;UBERON:0002791!7.02e-14!29;UBERON:0001893!7.02e-14!29;UBERON:0000956!1.04e-09!21;UBERON:0001869!1.04e-09!21;UBERON:0000203!1.04e-09!21;UBERON:0000922!1.40e-08!320;UBERON:0000468!3.22e-08!333;UBERON:0002619!6.66e-08!17
|tfbs_overrepresentation_for_novel_motifs=0.149902,0.0193818,0.133309,0.178048,0.531164,0.188081,0.254787,0.032132,0.32877,0.0396053,0.221763,1.97159,0.564861,0.264234,0.271754,0,0.42315,0.0671461,0.0275029,0.245228,1.19315,0.461365,0.263535,0.246461,0.138033,0.285776,0.0250871,0.202945,0.646362,0.0685294,0.192916,0.512187,0.23475,0.0883171,0.0793793,0.0459596,0.0618293,0.242872,0.052341,0.0410186,0.243076,0.196576,0.249206,0.274585,1.63745,0.980035,0.355451,0.214351,0.499056,0.095769,0.408111,0.307229,0.167462,0.641205,0.657376,0.743028,0.677192,0.23598,1.08601,0.268198,0.494318,0.314847,0.637374,0.398468,0.278491,0.433342,0.785371,1.12243,0.490165,0.979213,0.12178,1.32008,0.00424418,1.64631,0.0918517,0.208208,1.02246,0.914794,0.479091,0.113666,0.323638,0.438213,0.31368,0.861077,0.582029,0.000483541,9.53391,0.35371,0.359539,1.2816,0.851763,0.586575,0.523661,0.0737837,0.0506699,1.98496,0.87978,0.526183,0.355664,2.29597,1.76284,0.511936,0.625103,0.408622,0.407717,0.196264,0.459578,0.211422,0.116526,0.112248,0.875636,0.626748,0.114328,0.225582,0.858505,0.240644,0.0274913,0.180644,0.424276,0.820725,0.693645,0.991308,0.287218,0.345253,0.910454,0.482363,0.261058,0.517583,0.783932,0.260855,0.609469,0.173056,0.75595,0.280468,3.37054,0.0208943,0.471259,0.574117,0.832159,1.64606,1.25025,0.789841,0.804509,0.521565,0.402166,1.08621,0.358053,1.60668,0.156941,0.912901,0.899513,0.0028093,0.642658,0.394316,0.27974,0.718834,0.30804,0.085296,1.42746,0.155206,0.841238,0.581248,0.482758,0.143905,0.39934,0.273933,0.0613242,0.244407,0.0148726
|tfbs_overrepresentation_jaspar=MA0003.1;0.0196458,MA0004.1;0.178381,MA0006.1;0.265566,MA0007.1;0.970795,MA0009.1;0.535932,MA0014.1;0.000905551,MA0017.1;0.30345,MA0019.1;0.376509,MA0024.1;0.496718,MA0025.1;0.751694,MA0027.1;2.14278,MA0028.1;0.0821841,MA0029.1;0.477444,MA0030.1;0.483253,MA0031.1;0.451927,MA0038.1;0.285714,MA0040.1;0.547233,MA0041.1;0.129017,MA0042.1;1.82974,MA0043.1;0.624178,MA0046.1;0.568473,MA0048.1;0.0108253,MA0050.1;1.75727,MA0051.1;0.2928,MA0052.1;0.554531,MA0055.1;0.19426,MA0056.1;0,MA0057.1;0.262449,MA0058.1;0.117003,MA0059.1;0.124358,MA0060.1;0.161631,MA0061.1;0.0537092,MA0063.1;0,MA0066.1;0.759694,MA0067.1;0.857286,MA0068.1;1.38061,MA0069.1;0.554839,MA0070.1;0.54606,MA0071.1;0.20507,MA0072.1;0.538403,MA0073.1;2.43733,MA0074.1;0.695974,MA0076.1;0.101055,MA0077.1;0.518913,MA0078.1;1.54301,MA0081.1;0.8469,MA0083.1;0.623446,MA0084.1;1.1752,MA0087.1;0.583879,MA0088.1;0.978382,MA0089.1;0,MA0090.1;0.471234,MA0091.1;0.549843,MA0092.1;0.155586,MA0093.1;0.0864726,MA0095.1;0,MA0098.1;0,MA0100.1;0.2406,MA0101.1;0.40675,MA0103.1;1.09313,MA0105.1;0.0188009,MA0106.1;0.325663,MA0107.1;0.310214,MA0108.2;0.395878,MA0109.1;0,MA0111.1;0.494436,MA0113.1;2.26392,MA0114.1;0.0527257,MA0115.1;0.626759,MA0116.1;0.076822,MA0117.1;0.597086,MA0119.1;0.810263,MA0122.1;0.615314,MA0124.1;0.80652,MA0125.1;0.736412,MA0130.1;0,MA0131.1;0.372683,MA0132.1;0,MA0133.1;0,MA0135.1;0.657882,MA0136.1;0.731186,MA0139.1;0.0308792,MA0140.1;0.675435,MA0141.1;0.708661,MA0142.1;0.439269,MA0143.1;0.31603,MA0144.1;0.19926,MA0145.1;0.0816911,MA0146.1;0.183179,MA0147.1;0.469804,MA0148.1;0.189643,MA0149.1;0.415447,MA0062.2;0.0890335,MA0035.2;0.68369,MA0039.2;3.20906e-05,MA0138.2;2.57183,MA0002.2;2.2253,MA0137.2;1.6971,MA0104.2;0.337396,MA0047.2;0.285109,MA0112.2;0.0816855,MA0065.2;0.0821754,MA0150.1;0.970484,MA0151.1;0,MA0152.1;0.285194,MA0153.1;0.67335,MA0154.1;2.28265,MA0155.1;0.382638,MA0156.1;0.330301,MA0157.1;0.411541,MA0158.1;0,MA0159.1;0.0638985,MA0160.1;0.560136,MA0161.1;0,MA0162.1;0.00257384,MA0163.1;0.203681,MA0164.1;1.34551,MA0080.2;0.643629,MA0018.2;0.272436,MA0099.2;0.360735,MA0079.2;0.0765552,MA0102.2;1.22663,MA0258.1;0.178572,MA0259.1;0.0546944,MA0442.1;0
}}

Latest revision as of 15:13, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:69455850..69455865,+p@chr10:69455850..69455865
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Mm9::chr11:107595257..107595285,-p@chr11:107595257..107595285
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Mm9::chr9:49311883..49311895,-p@chr9:49311883..49311895
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Mm9::chr9:49312166..49312181,-p@chr9:49312166..49312181
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Mm9::chr9:49312850..49312862,-p@chr9:49312850..49312862
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Mm9::chr9:49313068..49313085,-p@chr9:49313068..49313085
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Mm9::chr9:49313302..49313330,-p@chr9:49313302..49313330
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Mm9::chr9:49313369..49313380,+p@chr9:49313369..49313380
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Mm9::chr9:49313478..49313519,-p@chr9:49313478..49313519
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Mm9::chr9:49313538..49313563,-p@chr9:49313538..49313563
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Mm9::chr9:49313591..49313616,-p@chr9:49313591..49313616
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Mm9::chr9:49313619..49313638,-p@chr9:49313619..49313638
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Mm9::chr9:49313649..49313661,-p@chr9:49313649..49313661
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Mm9::chr9:49315006..49315036,-p@chr9:49315006..49315036
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Mm9::chr9:49315042..49315077,-p@chr9:49315042..49315077
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Mm9::chr9:49316730..49316746,-p@chr9:49316730..49316746
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Mm9::chr9:49317913..49317944,-p@chr9:49317913..49317944
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Mm9::chr9:49317962..49318021,-p@chr9:49317962..49318021
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Mm9::chrX:71099730..71099790,-p@chrX:71099730..71099790
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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
central nervous system4.63e-2573
neurectoderm7.14e-2464
neural plate7.14e-2464
presumptive neural plate7.14e-2464
nervous system8.90e-2475
ectoderm-derived structure1.70e-2295
ectoderm1.70e-2295
presumptive ectoderm1.70e-2295
structure with developmental contribution from neural crest3.18e-2192
regional part of nervous system3.67e-2154
ecto-epithelium9.44e-2073
neural tube1.82e-1952
neural rod1.82e-1952
future spinal cord1.82e-1952
neural keel1.82e-1952
pre-chordal neural plate1.95e-1949
gray matter4.61e-1734
brain9.26e-1747
future brain9.26e-1747
regional part of brain3.09e-1646
anterior neural tube5.17e-1640
regional part of forebrain1.30e-1539
forebrain1.30e-1539
future forebrain1.30e-1539
brain grey matter7.02e-1429
regional part of telencephalon7.02e-1429
telencephalon7.02e-1429
cerebral cortex1.04e-0921
cerebral hemisphere1.04e-0921
pallium1.04e-0921
embryo1.40e-08320
multi-cellular organism3.22e-08333
regional part of cerebral cortex6.66e-0817


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)
MA0003.10.0196458
MA0004.10.178381
MA0006.10.265566
MA0007.10.970795
MA0009.10.535932
MA0014.10.000905551
MA0017.10.30345
MA0019.10.376509
MA0024.10.496718
MA0025.10.751694
MA0027.12.14278
MA0028.10.0821841
MA0029.10.477444
MA0030.10.483253
MA0031.10.451927
MA0038.10.285714
MA0040.10.547233
MA0041.10.129017
MA0042.11.82974
MA0043.10.624178
MA0046.10.568473
MA0048.10.0108253
MA0050.11.75727
MA0051.10.2928
MA0052.10.554531
MA0055.10.19426
MA0056.10
MA0057.10.262449
MA0058.10.117003
MA0059.10.124358
MA0060.10.161631
MA0061.10.0537092
MA0063.10
MA0066.10.759694
MA0067.10.857286
MA0068.11.38061
MA0069.10.554839
MA0070.10.54606
MA0071.10.20507
MA0072.10.538403
MA0073.12.43733
MA0074.10.695974
MA0076.10.101055
MA0077.10.518913
MA0078.11.54301
MA0081.10.8469
MA0083.10.623446
MA0084.11.1752
MA0087.10.583879
MA0088.10.978382
MA0089.10
MA0090.10.471234
MA0091.10.549843
MA0092.10.155586
MA0093.10.0864726
MA0095.10
MA0098.10
MA0100.10.2406
MA0101.10.40675
MA0103.11.09313
MA0105.10.0188009
MA0106.10.325663
MA0107.10.310214
MA0108.20.395878
MA0109.10
MA0111.10.494436
MA0113.12.26392
MA0114.10.0527257
MA0115.10.626759
MA0116.10.076822
MA0117.10.597086
MA0119.10.810263
MA0122.10.615314
MA0124.10.80652
MA0125.10.736412
MA0130.10
MA0131.10.372683
MA0132.10
MA0133.10
MA0135.10.657882
MA0136.10.731186
MA0139.10.0308792
MA0140.10.675435
MA0141.10.708661
MA0142.10.439269
MA0143.10.31603
MA0144.10.19926
MA0145.10.0816911
MA0146.10.183179
MA0147.10.469804
MA0148.10.189643
MA0149.10.415447
MA0062.20.0890335
MA0035.20.68369
MA0039.23.20906e-05
MA0138.22.57183
MA0002.22.2253
MA0137.21.6971
MA0104.20.337396
MA0047.20.285109
MA0112.20.0816855
MA0065.20.0821754
MA0150.10.970484
MA0151.10
MA0152.10.285194
MA0153.10.67335
MA0154.12.28265
MA0155.10.382638
MA0156.10.330301
MA0157.10.411541
MA0158.10
MA0159.10.0638985
MA0160.10.560136
MA0161.10
MA0162.10.00257384
MA0163.10.203681
MA0164.11.34551
MA0080.20.643629
MA0018.20.272436
MA0099.20.360735
MA0079.20.0765552
MA0102.21.22663
MA0258.10.178572
MA0259.10.0546944
MA0442.10
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