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MCL coexpression mm9:408: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002346!5.88e-27!64;UBERON:0003075!5.88e-27!64;UBERON:0007284!5.88e-27!64;UBERON:0003056!9.99e-24!49;UBERON:0010371!1.27e-21!73;UBERON:0010314!1.34e-21!92;UBERON:0000073!4.50e-20!54;UBERON:0001049!5.54e-20!52;UBERON:0005068!5.54e-20!52;UBERON:0006241!5.54e-20!52;UBERON:0007135!5.54e-20!52;UBERON:0000955!1.58e-19!47;UBERON:0006238!1.58e-19!47;UBERON:0002616!1.76e-18!46;UBERON:0004121!5.65e-17!95;UBERON:0000924!5.65e-17!95;UBERON:0006601!5.65e-17!95;UBERON:0003080!2.36e-16!40;UBERON:0001017!1.12e-15!73;UBERON:0002780!1.62e-15!39;UBERON:0001890!1.62e-15!39;UBERON:0006240!1.62e-15!39;UBERON:0001016!6.87e-15!75;UBERON:0002021!3.38e-12!10;UBERON:0000411!3.38e-12!10;UBERON:0001950!3.38e-12!10;UBERON:0002020!1.01e-11!34;UBERON:0003528!4.04e-11!29;UBERON:0002791!4.04e-11!29;UBERON:0001893!4.04e-11!29;UBERON:0000956!4.72e-11!21;UBERON:0001869!4.72e-11!21;UBERON:0000203!4.72e-11!21;UBERON:0002619!9.90e-09!17;UBERON:0000970!1.03e-08!9;UBERON:0000019!1.03e-08!9;UBERON:0000047!1.03e-08!9;UBERON:0010312!1.03e-08!9;UBERON:0004088!1.03e-08!9;UBERON:0002104!1.03e-08!9;UBERON:0001456!1.03e-08!9;UBERON:0003072!1.03e-08!9;UBERON:0004128!1.03e-08!9;UBERON:0003071!1.03e-08!9
|ontology_enrichment_uberon=UBERON:0002346!5.88e-27!64;UBERON:0003075!5.88e-27!64;UBERON:0007284!5.88e-27!64;UBERON:0003056!9.99e-24!49;UBERON:0010371!1.27e-21!73;UBERON:0010314!1.34e-21!92;UBERON:0000073!4.50e-20!54;UBERON:0001049!5.54e-20!52;UBERON:0005068!5.54e-20!52;UBERON:0006241!5.54e-20!52;UBERON:0007135!5.54e-20!52;UBERON:0000955!1.58e-19!47;UBERON:0006238!1.58e-19!47;UBERON:0002616!1.76e-18!46;UBERON:0004121!5.65e-17!95;UBERON:0000924!5.65e-17!95;UBERON:0006601!5.65e-17!95;UBERON:0003080!2.36e-16!40;UBERON:0001017!1.12e-15!73;UBERON:0002780!1.62e-15!39;UBERON:0001890!1.62e-15!39;UBERON:0006240!1.62e-15!39;UBERON:0001016!6.87e-15!75;UBERON:0002021!3.38e-12!10;UBERON:0000411!3.38e-12!10;UBERON:0001950!3.38e-12!10;UBERON:0002020!1.01e-11!34;UBERON:0003528!4.04e-11!29;UBERON:0002791!4.04e-11!29;UBERON:0001893!4.04e-11!29;UBERON:0000956!4.72e-11!21;UBERON:0001869!4.72e-11!21;UBERON:0000203!4.72e-11!21;UBERON:0002619!9.90e-09!17;UBERON:0000970!1.03e-08!9;UBERON:0000019!1.03e-08!9;UBERON:0000047!1.03e-08!9;UBERON:0010312!1.03e-08!9;UBERON:0004088!1.03e-08!9;UBERON:0002104!1.03e-08!9;UBERON:0001456!1.03e-08!9;UBERON:0003072!1.03e-08!9;UBERON:0004128!1.03e-08!9;UBERON:0003071!1.03e-08!9
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.0067353,0.144778,2.37887,0.0790596,0.583749,0.270195,0.146885,0.040605,0.00233292,0.236307,0.722367,0.0372188,0.27987,0.295744,0,0.44163,0.0750368,0.0320188,0.049362,0.772726,0.0267127,0.279154,0.26934,0.149704,0.301898,0.0293349,0.216938,0.103721,0.0796386,0.206597,0.531719,0.257084,0.0235517,1.03392,0.00844381,0.0693463,0.257981,0.468707,0.0468666,1.42411,0.210373,0.0220158,0.0888852,0.0114677,0.183361,0.372907,0.228683,1.07561,0.343195,0.426383,0.323798,0.0159859,0.661847,0.67813,0.28555,0.356911,0.25091,0.0265724,0.283926,0.513661,0.331566,0.045155,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.00542354,0.709559,0.0246496,0.0215675,0.101234,0.363297,0.498264,0.392419,0.0397272,1.15703,0.879999,0.139579,0.602212,0.000691814,26.0051,0.0797642,0.377064,1.30447,0.873554,2.50972,1.34156,0.587829,0.057338,1.12502,0.14406,0.545856,0.373124,0.0129514,1.34549,0.531465,0.645628,0.4269,1.09022,0.21005,0.478524,0.640728,0.127231,0.122746,0.157325,0.647285,0.124928,0.240232,0.880323,0.263255,0.00145901,0.193921,0.442771,3.72467,0.714636,0.398522,0.303371,0.362534,0.932468,0.501574,0.758659,0.53717,0.805419,1.00217,0.629874,0.186072,0.777296,0.296474,0.9011,1.72894,0.167758,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.169369,0.27407,0.0818785,0.00366709,0.66331,0.0522757,0.29573,0.739975,1.56184,1.59223,4.49559,0.167568,0.862985,0.601424,0.501973,0.15582,0.417485,0.289792,0.0688048,0.259556,0.00016118
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.0067353,0.144778,2.37887,0.0790596,0.583749,0.270195,0.146885,0.040605,0.00233292,0.236307,0.722367,0.0372188,0.27987,0.295744,0,0.44163,0.0750368,0.0320188,0.049362,0.772726,0.0267127,0.279154,0.26934,0.149704,0.301898,0.0293349,0.216938,0.103721,0.0796386,0.206597,0.531719,0.257084,0.0235517,1.03392,0.00844381,0.0693463,0.257981,0.468707,0.0468666,1.42411,0.210373,0.0220158,0.0888852,0.0114677,0.183361,0.372907,0.228683,1.07561,0.343195,0.426383,0.323798,0.0159859,0.661847,0.67813,0.28555,0.356911,0.25091,0.0265724,0.283926,0.513661,0.331566,0.045155,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.00542354,0.709559,0.0246496,0.0215675,0.101234,0.363297,0.498264,0.392419,0.0397272,1.15703,0.879999,0.139579,0.602212,0.000691814,26.0051,0.0797642,0.377064,1.30447,0.873554,2.50972,1.34156,0.587829,0.057338,1.12502,0.14406,0.545856,0.373124,0.0129514,1.34549,0.531465,0.645628,0.4269,1.09022,0.21005,0.478524,0.640728,0.127231,0.122746,0.157325,0.647285,0.124928,0.240232,0.880323,0.263255,0.00145901,0.193921,0.442771,3.72467,0.714636,0.398522,0.303371,0.362534,0.932468,0.501574,0.758659,0.53717,0.805419,1.00217,0.629874,0.186072,0.777296,0.296474,0.9011,1.72894,0.167758,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.169369,0.27407,0.0818785,0.00366709,0.66331,0.0522757,0.29573,0.739975,1.56184,1.59223,4.49559,0.167568,0.862985,0.601424,0.501973,0.15582,0.417485,0.289792,0.0688048,0.259556,0.00016118
|tfbs_overrepresentation_jaspar=MA0003.1;4.72491e-06,MA0004.1;0.191582,MA0006.1;0.604294,MA0007.1;0.181021,MA0009.1;0.5557,MA0014.1;0.000149633,MA0017.1;0.0999826,MA0019.1;0.394308,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;0.0910441,MA0029.1;0.496599,MA0030.1;0.502474,MA0031.1;0.470779,MA0038.1;0.815918,MA0040.1;0.567108,MA0041.1;0.140298,MA0042.1;3.31821,MA0043.1;0.644695,MA0046.1;0.58854,MA0048.1;0.0629374,MA0050.1;0.626793,MA0051.1;0.832236,MA0052.1;0.574473,MA0055.1;0.00632122,MA0056.1;0,MA0057.1;0.146647,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;0.309163,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.219128,MA0072.1;0.558195,MA0073.1;12.0526,MA0074.1;0.264633,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;0.00502864,MA0089.1;0,MA0090.1;0.167748,MA0091.1;0.200988,MA0092.1;0.502322,MA0093.1;0.316906,MA0095.1;0,MA0098.1;0,MA0100.1;0.255651,MA0101.1;0.141127,MA0103.1;0.106139,MA0105.1;0.0222933,MA0106.1;0.342589,MA0107.1;0.102611,MA0108.2;0.413973,MA0109.1;0,MA0111.1;0.177475,MA0113.1;0.319332,MA0114.1;0.0595575,MA0115.1;0.647296,MA0116.1;0.288992,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;2.74001,MA0136.1;0.766989,MA0139.1;0.0357525,MA0140.1;0.710317,MA0141.1;0.11774,MA0142.1;0.457961,MA0143.1;0.332773,MA0144.1;0.0609575,MA0145.1;0.00604759,MA0146.1;0.000279887,MA0147.1;0.0666796,MA0148.1;0.203219,MA0149.1;0.144679,MA0062.2;0.0237736,MA0035.2;0.718714,MA0039.2;6.15335e-05,MA0138.2;0.383644,MA0002.2;0.338271,MA0137.2;0.116005,MA0104.2;0.0420926,MA0047.2;0.301217,MA0112.2;0.00604704,MA0065.2;0.033152,MA0150.1;0.180943,MA0151.1;0,MA0152.1;0.814717,MA0153.1;0.694211,MA0154.1;0.0611613,MA0155.1;0.0417374,MA0156.1;0.356573,MA0157.1;0.429861,MA0158.1;0,MA0159.1;0.0715631,MA0160.1;0.592791,MA0161.1;0,MA0162.1;0.00359771,MA0163.1;0.00283249,MA0164.1;0.767642,MA0080.2;0.103116,MA0018.2;0.288261,MA0099.2;0.37828,MA0079.2;2.73242e-13,MA0102.2;1.24942,MA0258.1;0.0535937,MA0259.1;0.0616796,MA0442.1;0
}}
}}

Revision as of 11:42, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:101664466..101664470,+p@chr10:101664466..101664470
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Mm9::chr10:105933922..105933926,+p@chr10:105933922..105933926
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Mm9::chr10:106316061..106316068,+p@chr10:106316061..106316068
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Mm9::chr10:106316349..106316361,+p@chr10:106316349..106316361
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Mm9::chr10:106316396..106316409,+p@chr10:106316396..106316409
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Mm9::chr10:106316444..106316451,+p@chr10:106316444..106316451
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Mm9::chr10:106316473..106316485,+p@chr10:106316473..106316485
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Mm9::chr10:106316871..106316888,+p@chr10:106316871..106316888
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Mm9::chr10:106316927..106316957,+p@chr10:106316927..106316957
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Mm9::chr10:106317050..106317062,+p@chr10:106317050..106317062
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Mm9::chr17:27839467..27839470,+p@chr17:27839467..27839470
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Mm9::chr18:23042753..23042757,-p@chr18:23042753..23042757
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Mm9::chr1:81319981..81319982,+p@chr1:81319981..81319982
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Mm9::chr2:136589772..136589791,+p@chr2:136589772..136589791
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Mm9::chr5:116995859..116995889,-p@chr5:116995859..116995889
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Mm9::chr6:112708385..112708391,-p@chr6:112708385..112708391
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Mm9::chr6:77461835..77461839,-p@chr6:77461835..77461839
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Mm9::chr7:99485100..99485138,+p@chr7:99485100..99485138
+


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
neurectoderm5.88e-2764
neural plate5.88e-2764
presumptive neural plate5.88e-2764
pre-chordal neural plate9.99e-2449
ecto-epithelium1.27e-2173
structure with developmental contribution from neural crest1.34e-2192
regional part of nervous system4.50e-2054
neural tube5.54e-2052
neural rod5.54e-2052
future spinal cord5.54e-2052
neural keel5.54e-2052
brain1.58e-1947
future brain1.58e-1947
regional part of brain1.76e-1846
ectoderm-derived structure5.65e-1795
ectoderm5.65e-1795
presumptive ectoderm5.65e-1795
anterior neural tube2.36e-1640
central nervous system1.12e-1573
regional part of forebrain1.62e-1539
forebrain1.62e-1539
future forebrain1.62e-1539
nervous system6.87e-1575
occipital lobe3.38e-1210
visual cortex3.38e-1210
neocortex3.38e-1210
gray matter1.01e-1134
brain grey matter4.04e-1129
regional part of telencephalon4.04e-1129
telencephalon4.04e-1129
cerebral cortex4.72e-1121
cerebral hemisphere4.72e-1121
pallium4.72e-1121
regional part of cerebral cortex9.90e-0917
eye1.03e-089
camera-type eye1.03e-089
simple eye1.03e-089
immature eye1.03e-089
ocular region1.03e-089
visual system1.03e-089
face1.03e-089
optic cup1.03e-089
optic vesicle1.03e-089
eye primordium1.03e-089


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)
MA0003.14.72491e-06
MA0004.10.191582
MA0006.10.604294
MA0007.10.181021
MA0009.10.5557
MA0014.10.000149633
MA0017.10.0999826
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.10.0910441
MA0029.10.496599
MA0030.10.502474
MA0031.10.470779
MA0038.10.815918
MA0040.10.567108
MA0041.10.140298
MA0042.13.31821
MA0043.10.644695
MA0046.10.58854
MA0048.10.0629374
MA0050.10.626793
MA0051.10.832236
MA0052.10.574473
MA0055.10.00632122
MA0056.10
MA0057.10.146647
MA0058.10.127732
MA0059.10.13543
MA0060.10.0476793
MA0061.10.060618
MA0063.10
MA0066.10.293002
MA0067.10.879099
MA0068.10.309163
MA0069.10.574784
MA0070.10.565924
MA0071.10.219128
MA0072.10.558195
MA0073.112.0526
MA0074.10.264633
MA0076.10.110983
MA0077.10.538513
MA0078.10.336143
MA0081.10.150322
MA0083.10.643958
MA0084.11.1979
MA0087.10.604077
MA0088.10.00502864
MA0089.10
MA0090.10.167748
MA0091.10.200988
MA0092.10.502322
MA0093.10.316906
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.10.141127
MA0103.10.106139
MA0105.10.0222933
MA0106.10.342589
MA0107.10.102611
MA0108.20.413973
MA0109.10
MA0111.10.177475
MA0113.10.319332
MA0114.10.0595575
MA0115.10.647296
MA0116.10.288992
MA0117.10.617392
MA0119.10.141504
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.12.74001
MA0136.10.766989
MA0139.10.0357525
MA0140.10.710317
MA0141.10.11774
MA0142.10.457961
MA0143.10.332773
MA0144.10.0609575
MA0145.10.00604759
MA0146.10.000279887
MA0147.10.0666796
MA0148.10.203219
MA0149.10.144679
MA0062.20.0237736
MA0035.20.718714
MA0039.26.15335e-05
MA0138.20.383644
MA0002.20.338271
MA0137.20.116005
MA0104.20.0420926
MA0047.20.301217
MA0112.20.00604704
MA0065.20.033152
MA0150.10.180943
MA0151.10
MA0152.10.814717
MA0153.10.694211
MA0154.10.0611613
MA0155.10.0417374
MA0156.10.356573
MA0157.10.429861
MA0158.10
MA0159.10.0715631
MA0160.10.592791
MA0161.10
MA0162.10.00359771
MA0163.10.00283249
MA0164.10.767642
MA0080.20.103116
MA0018.20.288261
MA0099.20.37828
MA0079.22.73242e-13
MA0102.21.24942
MA0258.10.0535937
MA0259.10.0616796
MA0442.10
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