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MCL coexpression mm9:3578: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000956!7.35e-26!21;UBERON:0001869!7.35e-26!21;UBERON:0000203!7.35e-26!21;UBERON:0002619!1.81e-20!17;UBERON:0003528!1.13e-19!29;UBERON:0002791!1.13e-19!29;UBERON:0001893!1.13e-19!29;UBERON:0002780!2.48e-19!39;UBERON:0001890!2.48e-19!39;UBERON:0006240!2.48e-19!39;UBERON:0003080!1.29e-18!40;UBERON:0000955!7.40e-16!47;UBERON:0006238!7.40e-16!47;UBERON:0002020!1.24e-15!34;UBERON:0002616!5.28e-15!46;UBERON:0002021!7.83e-14!10;UBERON:0000411!7.83e-14!10;UBERON:0001950!7.83e-14!10;UBERON:0003056!1.52e-13!49;UBERON:0000073!2.28e-13!54;UBERON:0001049!2.92e-12!52;UBERON:0005068!2.92e-12!52;UBERON:0006241!2.92e-12!52;UBERON:0007135!2.92e-12!52;UBERON:0001017!3.31e-09!73;UBERON:0001016!1.01e-08!75;UBERON:0002346!2.07e-08!64;UBERON:0003075!2.07e-08!64;UBERON:0007284!2.07e-08!64;UBERON:0002113!3.36e-08!14;UBERON:0003918!3.36e-08!14;UBERON:0011143!3.36e-08!14;UBERON:0005095!3.36e-08!14;UBERON:0007687!3.36e-08!14;UBERON:0001954!4.26e-08!7;UBERON:0003022!4.26e-08!7;UBERON:0002421!4.26e-08!7;UBERON:0000349!4.26e-08!7;UBERON:0002600!4.26e-08!7;UBERON:0010371!4.18e-07!73
|tfbs_overrepresentation_for_novel_motifs=1.77936,0.193418,1.71649,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,0.66329,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,1.57636,1.62664,2.12754,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,0.872889,0.563758,0.902078,1.32715,0.50014,0.582863,1.94114,0.724277,0.610669,0.156582,0.788421,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,0.777706,1.44925,0.416814,0.402065,0.411601,1.04436,4.38717,1.63704,0.476502,1.16055,1.00151,0.459035,1.32978,0.181575,0.195254,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,1.31639,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,1.76245,1.38039,2.76179,0.876299,1.63327,0.580657,1.79445,0.805461,1.14346,2.35522,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.751419,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,1.44008,0.999018,0.260379,1.39822,2.21624,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,3.52716,1.32889,1.21423,0.741984,1.11251,2.17757,1.38188,0.904334,4.99622
|tfbs_overrepresentation_jaspar=MA0003.1;0.526413,MA0004.1;0.801718,MA0006.1;0.60285,MA0007.1;0.784593,MA0009.1;1.27673,MA0014.1;7.72908,MA0017.1;0.635031,MA0019.1;1.08369,MA0024.1;1.23079,MA0025.1;1.51835,MA0027.1;2.9431,MA0028.1;0.61552,MA0029.1;1.20789,MA0030.1;1.21482,MA0031.1;1.17722,MA0038.1;0.963265,MA0040.1;1.28983,MA0041.1;0.714279,MA0042.1;0.69885,MA0043.1;1.3775,MA0046.1;1.31428,MA0048.1;0.353763,MA0050.1;0.845669,MA0051.1;0.973068,MA0052.1;1.29825,MA0055.1;0.190475,MA0056.1;0,MA0057.1;0.896032,MA0058.1;0.690848,MA0059.1;0.705317,MA0060.1;2.1699,MA0061.1;0.5406,MA0063.1;0,MA0066.1;0.951196,MA0067.1;1.63197,MA0068.1;0.908538,MA0069.1;1.29861,MA0070.1;1.28847,MA0071.1;0.844726,MA0072.1;1.2796,MA0073.1;4.74783,MA0074.1;0.911576,MA0076.1;0.657929,MA0077.1;1.2569,MA0078.1;1.0091,MA0081.1;0.732313,MA0083.1;1.37668,MA0084.1;1.96428,MA0087.1;1.33189,MA0088.1;1.40099,MA0089.1;0,MA0090.1;0.762482,MA0091.1;0.816659,MA0092.1;0.762845,MA0093.1;0.62555,MA0095.1;0,MA0098.1;0,MA0100.1;0.89873,MA0101.1;0.71579,MA0103.1;0.647985,MA0105.1;0.405648,MA0106.1;1.01755,MA0107.1;0.640607,MA0108.2;1.10817,MA0109.1;0,MA0111.1;1.83298,MA0113.1;0.986839,MA0114.1;0.537669,MA0115.1;1.38041,MA0116.1;0.602598,MA0117.1;1.34691,MA0119.1;0.716476,MA0122.1;1.36752,MA0124.1;1.57762,MA0125.1;1.5017,MA0130.1;0,MA0131.1;1.07881,MA0132.1;0,MA0133.1;0,MA0135.1;1.4152,MA0136.1;0.933582,MA0139.1;0.462282,MA0140.1;0.898603,MA0141.1;0.671467,MA0142.1;1.16183,MA0143.1;1.00467,MA0144.1;0.541532,MA0145.1;2.21145,MA0146.1;2.77996,MA0147.1;0.556853,MA0148.1;0.820161,MA0149.1;0.722227,MA0062.2;0.412742,MA0035.2;0.903829,MA0039.2;3.91141,MA0138.2;1.07027,MA0002.2;0.466067,MA0137.2;0.668025,MA0104.2;0.48458,MA0047.2;0.962424,MA0112.2;0.29236,MA0065.2;0.292912,MA0150.1;0.784464,MA0151.1;0,MA0152.1;0.962542,MA0153.1;1.43238,MA0154.1;0.35067,MA0155.1;0.312898,MA0156.1;0.656895,MA0157.1;1.12772,MA0158.1;0,MA0159.1;1.39671,MA0160.1;0.823568,MA0161.1;0,MA0162.1;0.166722,MA0163.1;3.6249,MA0164.1;0.933981,MA0080.2;0.64167,MA0018.2;0.944669,MA0099.2;1.06348,MA0079.2;2.59634,MA0102.2;2.01714,MA0258.1;0.520639,MA0259.1;1.34197,MA0442.1;0
}}

Latest revision as of 20:19, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr6:85137491..85137504,+p3@Emx1
Mm9::chr6:85137505..85137517,+p2@Emx1
Mm9::chr6:85137520..85137563,+p1@Emx1


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
neuron of cerebral cortex1.23e-086

Uber Anatomy
Ontology termp-valuen
cerebral cortex7.35e-2621
cerebral hemisphere7.35e-2621
pallium7.35e-2621
regional part of cerebral cortex1.81e-2017
brain grey matter1.13e-1929
regional part of telencephalon1.13e-1929
telencephalon1.13e-1929
regional part of forebrain2.48e-1939
forebrain2.48e-1939
future forebrain2.48e-1939
anterior neural tube1.29e-1840
brain7.40e-1647
future brain7.40e-1647
gray matter1.24e-1534
regional part of brain5.28e-1546
occipital lobe7.83e-1410
visual cortex7.83e-1410
neocortex7.83e-1410
pre-chordal neural plate1.52e-1349
regional part of nervous system2.28e-1354
neural tube2.92e-1252
neural rod2.92e-1252
future spinal cord2.92e-1252
neural keel2.92e-1252
central nervous system3.31e-0973
nervous system1.01e-0875
neurectoderm2.07e-0864
neural plate2.07e-0864
presumptive neural plate2.07e-0864
kidney3.36e-0814
kidney mesenchyme3.36e-0814
upper urinary tract3.36e-0814
kidney rudiment3.36e-0814
kidney field3.36e-0814
Ammon's horn4.26e-087
lobe parts of cerebral cortex4.26e-087
hippocampal formation4.26e-087
limbic system4.26e-087
limbic lobe4.26e-087
ecto-epithelium4.18e-0773


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)
MA0003.10.526413
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.17.72908
MA0017.10.635031
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.10.61552
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.10.714279
MA0042.10.69885
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.190475
MA0056.10
MA0057.10.896032
MA0058.10.690848
MA0059.10.705317
MA0060.12.1699
MA0061.10.5406
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.10.908538
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.14.74783
MA0074.10.911576
MA0076.10.657929
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.11.37668
MA0084.11.96428
MA0087.11.33189
MA0088.11.40099
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.11.83298
MA0113.10.986839
MA0114.10.537669
MA0115.11.38041
MA0116.10.602598
MA0117.11.34691
MA0119.10.716476
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.10.462282
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.12.21145
MA0146.12.77996
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.20.412742
MA0035.20.903829
MA0039.23.91141
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.20.48458
MA0047.20.962424
MA0112.20.29236
MA0065.20.292912
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.35067
MA0155.10.312898
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.11.39671
MA0160.10.823568
MA0161.10
MA0162.10.166722
MA0163.13.6249
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.22.59634
MA0102.22.01714
MA0258.10.520639
MA0259.11.34197
MA0442.10
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