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MCL coexpression mm9:826: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!1.86e-31!75;UBERON:0001017!1.93e-31!73;UBERON:0004121!1.75e-28!95;UBERON:0000924!1.75e-28!95;UBERON:0006601!1.75e-28!95;UBERON:0002346!1.15e-26!64;UBERON:0003075!1.15e-26!64;UBERON:0007284!1.15e-26!64;UBERON:0000073!3.86e-23!54;UBERON:0010371!1.13e-22!73;UBERON:0001049!7.29e-22!52;UBERON:0005068!7.29e-22!52;UBERON:0006241!7.29e-22!52;UBERON:0007135!7.29e-22!52;UBERON:0010314!1.46e-21!92;UBERON:0003056!1.43e-19!49;UBERON:0000955!9.65e-19!47;UBERON:0006238!9.65e-19!47;UBERON:0002616!3.14e-18!46;UBERON:0002020!1.52e-17!34;UBERON:0003080!4.43e-17!40;UBERON:0002780!1.81e-16!39;UBERON:0001890!1.81e-16!39;UBERON:0006240!1.81e-16!39;UBERON:0003528!1.28e-14!29;UBERON:0002791!1.28e-14!29;UBERON:0001893!1.28e-14!29;UBERON:0000956!1.09e-10!21;UBERON:0001869!1.09e-10!21;UBERON:0000203!1.09e-10!21;UBERON:0000468!4.18e-09!333;UBERON:0002619!7.00e-09!17;UBERON:0002021!1.08e-07!10;UBERON:0000411!1.08e-07!10;UBERON:0001950!1.08e-07!10
|tfbs_overrepresentation_for_novel_motifs=0.354643,0.227469,0.330161,0.394491,0.227651,0.40827,0.495658,0.146465,0.912659,0.573183,0.453212,0.484001,1.41744,0.507558,0.24249,0,0.696644,0.62892,0.134657,0.902262,0.296085,0.403891,0.50668,0.64218,0.337218,0.534339,0.402559,0.428336,0.268347,0.319094,0.414842,0.796599,1.17111,0.364174,0.681042,2.24964,0.210533,0.480503,0.191662,0.967553,0.224094,0.419787,0.163087,0.244285,0.0122159,0.998423,0.618203,1.12809,0.904531,0.271021,0.679429,0.560572,0.633942,0.937018,0.954342,0.514504,0.279148,0.471658,0.12126,0.512521,0.776777,0.569793,0.492158,0.668331,0.525334,0.708248,1.08987,1.43807,0.772155,1.29123,0.31262,0.460931,0.0512949,0.987652,0.748687,1.17157,0.364033,0.607043,0.759798,0.299972,0.463363,0.713779,0.568383,0.858535,0.873141,0.204425,0.439624,0.657454,0.623015,1.60001,1.15927,0.878077,0.809272,0.657661,0.551605,0.991864,0.444003,0.812053,0.618454,2.6387,0.605162,0.796322,0.919715,0.680015,1.62629,1.07585,0.737915,0.439611,0.30446,1.46548,0.348012,0.921485,0.301014,0.458194,1.16629,0.222515,0.795864,0.398075,0.697928,0.597328,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,1.00644,1.05894,0.527782,1.18781,0.0467191,0.951467,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,1.07771,0.621266,1.92834,0.364791,1.2115,1.10522,1.45555,0.938577,0.527659,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.914544,0.669337,0.519673,1.1358,0.482466,0.0435162
|tfbs_overrepresentation_jaspar=MA0003.1;0.0343274,MA0004.1;0.394951,MA0006.1;0.238555,MA0007.1;0.38073,MA0009.1;0.82278,MA0014.1;0.433479,MA0017.1;0.26239,MA0019.1;0.642876,MA0024.1;0.779446,MA0025.1;1.05446,MA0027.1;2.46647,MA0028.1;0.24786,MA0029.1;0.757957,MA0030.1;0.764448,MA0031.1;0.729293,MA0038.1;2.27384,MA0040.1;0.835181,MA0041.1;0.323687,MA0042.1;0.311486,MA0043.1;0.918718,MA0046.1;0.858391,MA0048.1;0.993388,MA0050.1;0.431976,MA0051.1;0.542972,MA0052.1;0.84317,MA0055.1;5.29873,MA0056.1;0,MA0057.1;0.934348,MA0058.1;0.823526,MA0059.1;0.849123,MA0060.1;1.55044,MA0061.1;0.194456,MA0063.1;0,MA0066.1;2.23874,MA0067.1;1.16502,MA0068.1;0.266547,MA0069.1;0.843506,MA0070.1;0.833895,MA0071.1;0.431174,MA0072.1;0.825495,MA0073.1;0.0431817,MA0074.1;0.488775,MA0076.1;0.279739,MA0077.1;0.804033,MA0078.1;0.575205,MA0081.1;0.338098,MA0083.1;0.917931,MA0084.1;1.49188,MA0087.1;0.87515,MA0088.1;1.5772,MA0089.1;0,MA0090.1;0.951436,MA0091.1;0.407455,MA0092.1;0.362847,MA0093.1;0.709711,MA0095.1;0,MA0098.1;0,MA0100.1;1.20151,MA0101.1;0.324888,MA0103.1;0.272167,MA0105.1;0.109964,MA0106.1;0.582805,MA0107.1;0.266586,MA0108.2;0.665343,MA0109.1;0,MA0111.1;0.980871,MA0113.1;0.555251,MA0114.1;0.19245,MA0115.1;0.921497,MA0116.1;0.670446,MA0117.1;0.88947,MA0119.1;0.325434,MA0122.1;0.909168,MA0124.1;1.11203,MA0125.1;1.03833,MA0130.1;0,MA0131.1;0.638414,MA0132.1;0,MA0133.1;0,MA0135.1;0.954884,MA0136.1;0.508047,MA0139.1;0.441109,MA0140.1;0.477483,MA0141.1;0.29014,MA0142.1;0.714976,MA0143.1;0.571221,MA0144.1;0.195095,MA0145.1;0.200183,MA0146.1;0.30073,MA0147.1;0.593505,MA0148.1;0.410398,MA0149.1;1.58098,MA0062.2;0.113962,MA0035.2;0.482026,MA0039.2;0.043355,MA0138.2;0.630612,MA0002.2;0.145685,MA0137.2;0.287486,MA0104.2;0.476119,MA0047.2;0.533516,MA0112.2;0.442124,MA0065.2;0.200864,MA0150.1;0.380623,MA0151.1;0,MA0152.1;0.53362,MA0153.1;0.971406,MA0154.1;0.0809407,MA0155.1;0.490492,MA0156.1;0.278949,MA0157.1;0.683365,MA0158.1;0,MA0159.1;0.214506,MA0160.1;0.413266,MA0161.1;0,MA0162.1;0.0672805,MA0163.1;0.820439,MA0164.1;0.508398,MA0080.2;0.267388,MA0018.2;0.51781,MA0099.2;0.624421,MA0079.2;1.52717,MA0102.2;1.5442,MA0258.1;1.02259,MA0259.1;0.196451,MA0442.1;0
}}

Latest revision as of 15:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:66118158..66118223,-p1@Kcnq3
Mm9::chr1:50984355..50984387,+p1@Tmeff2
Mm9::chr3:127111962..127111982,-p6@Ank2
Mm9::chr4:109959186..109959222,-p2@Elavl4
Mm9::chr4:109959224..109959246,-p3@Elavl4
Mm9::chr4:109960084..109960139,-p1@Elavl4
Mm9::chr6:149357401..149357412,+p3@Bicd1
Mm9::chr6:149357495..149357560,+p1@Bicd1
Mm9::chr6:77929476..77929494,-p3@Ctnna2


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
nervous system1.86e-3175
central nervous system1.93e-3173
ectoderm-derived structure1.75e-2895
ectoderm1.75e-2895
presumptive ectoderm1.75e-2895
neurectoderm1.15e-2664
neural plate1.15e-2664
presumptive neural plate1.15e-2664
regional part of nervous system3.86e-2354
ecto-epithelium1.13e-2273
neural tube7.29e-2252
neural rod7.29e-2252
future spinal cord7.29e-2252
neural keel7.29e-2252
structure with developmental contribution from neural crest1.46e-2192
pre-chordal neural plate1.43e-1949
brain9.65e-1947
future brain9.65e-1947
regional part of brain3.14e-1846
gray matter1.52e-1734
anterior neural tube4.43e-1740
regional part of forebrain1.81e-1639
forebrain1.81e-1639
future forebrain1.81e-1639
brain grey matter1.28e-1429
regional part of telencephalon1.28e-1429
telencephalon1.28e-1429
cerebral cortex1.09e-1021
cerebral hemisphere1.09e-1021
pallium1.09e-1021
multi-cellular organism4.18e-09333
regional part of cerebral cortex7.00e-0917
occipital lobe1.08e-0710
visual cortex1.08e-0710
neocortex1.08e-0710


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)
MA0003.10.0343274
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.10.433479
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.12.27384
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.10.993388
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.15.29873
MA0056.10
MA0057.10.934348
MA0058.10.823526
MA0059.10.849123
MA0060.11.55044
MA0061.10.194456
MA0063.10
MA0066.12.23874
MA0067.11.16502
MA0068.10.266547
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.10.0431817
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.11.5772
MA0089.10
MA0090.10.951436
MA0091.10.407455
MA0092.10.362847
MA0093.10.709711
MA0095.10
MA0098.10
MA0100.11.20151
MA0101.10.324888
MA0103.10.272167
MA0105.10.109964
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.980871
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.670446
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.10.441109
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.195095
MA0145.10.200183
MA0146.10.30073
MA0147.10.593505
MA0148.10.410398
MA0149.11.58098
MA0062.20.113962
MA0035.20.482026
MA0039.20.043355
MA0138.20.630612
MA0002.20.145685
MA0137.20.287486
MA0104.20.476119
MA0047.20.533516
MA0112.20.442124
MA0065.20.200864
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.0809407
MA0155.10.490492
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.10.0672805
MA0163.10.820439
MA0164.10.508398
MA0080.20.267388
MA0018.20.51781
MA0099.20.624421
MA0079.21.52717
MA0102.21.5442
MA0258.11.02259
MA0259.10.196451
MA0442.10
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