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MCL coexpression mm9:2852: Difference between revisions

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{{MCL_coexpression_mm9
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regulation of astrocyte differentiation;0.00405412808853339;15904!GO:0048710;regulation of astrocyte differentiation;0.00405412808853339;15904!GO:0021766;hippocampus development;0.00405412808853339;15904!GO:0014014;negative regulation of gliogenesis;0.00405412808853339;15904!GO:0045686;negative regulation of glial cell differentiation;0.00405412808853339;15904!GO:0048708;astrocyte differentiation;0.00405412808853339;15904!GO:0045685;regulation of glial cell differentiation;0.00405412808853339;15904!GO:0021895;cerebral cortex neuron differentiation;0.00405412808853339;15904!GO:0014013;regulation of gliogenesis;0.00405412808853339;15904!GO:0021761;limbic system development;0.00405412808853339;15904!GO:0021543;pallium development;0.00515979938540614;15904!GO:0045665;negative regulation of neuron differentiation;0.00540550411804453;15904!GO:0021537;telencephalon development;0.0068413411494001;15904!GO:0000082;G1/S transition of mitotic cell cycle;0.0068413411494001;15904!GO:0007405;neuroblast proliferation;0.0068413411494001;15904!GO:0045664;regulation of neuron differentiation;0.0068413411494001;15904!GO:0010001;glial cell differentiation;0.00831096258149346;15904!GO:0042063;gliogenesis;0.00831096258149346;15904!GO:0051325;interphase;0.00831096258149346;15904!GO:0051329;interphase of mitotic cell cycle;0.00831096258149346;15904!GO:0045596;negative regulation of cell differentiation;0.0164095660726352;15904!GO:0030900;forebrain development;0.0183317096177162;15904!GO:0051093;negative regulation of developmental process;0.0183317096177162;15904!GO:0045595;regulation of cell differentiation;0.0258450665644004;15904!GO:0008284;positive regulation of cell proliferation;0.0285410617432751;15904!GO:0007420;brain development;0.028690752626544;15904!GO:0000278;mitotic cell cycle;0.0334465567304005;15904!GO:0007417;central nervous system development;0.0334465567304005;15904!GO:0050793;regulation of developmental 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|gostat_on_MCL_coexpression=GO:0048712;negative regulation of astrocyte differentiation;0.00405412808853339;15904!GO:0048710;regulation of astrocyte differentiation;0.00405412808853339;15904!GO:0021766;hippocampus development;0.00405412808853339;15904!GO:0014014;negative regulation of gliogenesis;0.00405412808853339;15904!GO:0045686;negative regulation of glial cell differentiation;0.00405412808853339;15904!GO:0048708;astrocyte differentiation;0.00405412808853339;15904!GO:0045685;regulation of glial cell differentiation;0.00405412808853339;15904!GO:0021895;cerebral cortex neuron differentiation;0.00405412808853339;15904!GO:0014013;regulation of gliogenesis;0.00405412808853339;15904!GO:0021761;limbic system development;0.00405412808853339;15904!GO:0021543;pallium development;0.00515979938540614;15904!GO:0045665;negative regulation of neuron differentiation;0.00540550411804453;15904!GO:0021537;telencephalon development;0.0068413411494001;15904!GO:0000082;G1/S transition of mitotic cell cycle;0.0068413411494001;15904!GO:0007405;neuroblast proliferation;0.0068413411494001;15904!GO:0045664;regulation of neuron differentiation;0.0068413411494001;15904!GO:0010001;glial cell differentiation;0.00831096258149346;15904!GO:0042063;gliogenesis;0.00831096258149346;15904!GO:0051325;interphase;0.00831096258149346;15904!GO:0051329;interphase of mitotic cell cycle;0.00831096258149346;15904!GO:0045596;negative regulation of cell differentiation;0.0164095660726352;15904!GO:0030900;forebrain development;0.0183317096177162;15904!GO:0051093;negative regulation of developmental process;0.0183317096177162;15904!GO:0045595;regulation of cell differentiation;0.0258450665644004;15904!GO:0008284;positive regulation of cell proliferation;0.0285410617432751;15904!GO:0007420;brain development;0.028690752626544;15904!GO:0000278;mitotic cell cycle;0.0334465567304005;15904!GO:0007417;central nervous system development;0.0334465567304005;15904!GO:0050793;regulation of developmental process;0.0357881651953293;15904!GO:0022403;cell cycle phase;0.0362255961459274;15904!GO:0030182;neuron differentiation;0.0362255961459274;15904!GO:0048699;generation of neurons;0.0389442001231844;15904!GO:0042127;regulation of cell proliferation;0.0389442001231844;15904!GO:0022008;neurogenesis;0.040302802762479;15904!
|ontology_enrichment_celltype=CL:0000221!4.34e-19!44;CL:0000133!4.34e-19!44;CL:0002319!2.01e-18!43;CL:0000117!2.81e-15!23;CL:0000337!2.81e-15!23;CL:0000540!1.44e-14!33;CL:0000047!1.44e-14!33;CL:0000031!1.44e-14!33;CL:0000404!1.44e-14!33;CL:0000055!3.36e-14!49;CL:0000393!1.78e-10!39;CL:0000211!1.78e-10!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!1.11e-30!95;UBERON:0000924!1.11e-30!95;UBERON:0006601!1.11e-30!95;UBERON:0001017!3.82e-30!73;UBERON:0001016!4.16e-30!75;UBERON:0002346!7.97e-27!64;UBERON:0003075!7.97e-27!64;UBERON:0007284!7.97e-27!64;UBERON:0010371!4.82e-25!73;UBERON:0000073!9.07e-24!54;UBERON:0001049!9.44e-23!52;UBERON:0005068!9.44e-23!52;UBERON:0006241!9.44e-23!52;UBERON:0007135!9.44e-23!52;UBERON:0000955!3.72e-19!47;UBERON:0006238!3.72e-19!47;UBERON:0003056!5.37e-19!49;UBERON:0002616!9.67e-19!46;UBERON:0010314!6.51e-17!92;UBERON:0003080!5.45e-16!40;UBERON:0002020!7.44e-16!34;UBERON:0002780!1.60e-15!39;UBERON:0001890!1.60e-15!39;UBERON:0006240!1.60e-15!39;UBERON:0003528!1.04e-12!29;UBERON:0002791!1.04e-12!29;UBERON:0001893!1.04e-12!29;UBERON:0000922!2.74e-09!320;UBERON:0000956!2.51e-08!21;UBERON:0001869!2.51e-08!21;UBERON:0000203!2.51e-08!21;UBERON:0000468!6.04e-08!333;UBERON:0003076!1.68e-07!12;UBERON:0003057!1.68e-07!12
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.193418,0.722405,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,1.23467,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,1.138,0.328717,0.679146,0.275782,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,5.11274,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,0.444545,0.563758,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.922882,0.788421,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,1.6706,0.474956,0.777706,1.44925,4.93332,1.03818,0.411601,1.04436,1.20986,0.684144,0.476502,2.61188,1.00151,0.459035,1.32978,3.0674,0.195254,0.99201,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,1.31639,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,2.53104,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,1.45847,1.36093,0.792832,1.52297,0.955954,1.65529,0.273451,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,1.44008,0.38417,2.0485,1.39822,0.516739,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,0.833542
|tfbs_overrepresentation_jaspar=MA0003.1;2.4568,MA0004.1;0.801718,MA0006.1;1.46714,MA0007.1;0.784593,MA0009.1;1.27673,MA0014.1;1.93445,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;0.343188,MA0069.1;1.29861,MA0070.1;1.28847,MA0071.1;0.844726,MA0072.1;1.2796,MA0073.1;0.439282,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;0.778753,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;0.794492,MA0146.1;2.07553,MA0147.1;1.37022,MA0148.1;0.820161,MA0149.1;0.722227,MA0062.2;0.412742,MA0035.2;0.903829,MA0039.2;2.6396,MA0138.2;1.07027,MA0002.2;0.466067,MA0137.2;0.668025,MA0104.2;1.21648,MA0047.2;0.962424,MA0112.2;0.29236,MA0065.2;0.79573,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;0.569393,MA0160.1;0.823568,MA0161.1;0,MA0162.1;1.53682,MA0163.1;0.477233,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;0.543506,MA0442.1;0
}}

Latest revision as of 19:11, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:48356475..48356492,+p1@Id4
Mm9::chr2:20890358..20890371,+p3@Gm13375
Mm9::chr4:41587355..41587377,-p1@ENSMUST00000127306


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

GO IDGO nameFDR corrected p-value
GO:0048712negative regulation of astrocyte differentiation0.00405412808853339
GO:0048710regulation of astrocyte differentiation0.00405412808853339
GO:0021766hippocampus development0.00405412808853339
GO:0014014negative regulation of gliogenesis0.00405412808853339
GO:0045686negative regulation of glial cell differentiation0.00405412808853339
GO:0048708astrocyte differentiation0.00405412808853339
GO:0045685regulation of glial cell differentiation0.00405412808853339
GO:0021895cerebral cortex neuron differentiation0.00405412808853339
GO:0014013regulation of gliogenesis0.00405412808853339
GO:0021761limbic system development0.00405412808853339
GO:0021543pallium development0.00515979938540614
GO:0045665negative regulation of neuron differentiation0.00540550411804453
GO:0021537telencephalon development0.0068413411494001
GO:0000082G1/S transition of mitotic cell cycle0.0068413411494001
GO:0007405neuroblast proliferation0.0068413411494001
GO:0045664regulation of neuron differentiation0.0068413411494001
GO:0010001glial cell differentiation0.00831096258149346
GO:0042063gliogenesis0.00831096258149346
GO:0051325interphase0.00831096258149346
GO:0051329interphase of mitotic cell cycle0.00831096258149346
GO:0045596negative regulation of cell differentiation0.0164095660726352
GO:0030900forebrain development0.0183317096177162
GO:0051093negative regulation of developmental process0.0183317096177162
GO:0045595regulation of cell differentiation0.0258450665644004
GO:0008284positive regulation of cell proliferation0.0285410617432751
GO:0007420brain development0.028690752626544
GO:0000278mitotic cell cycle0.0334465567304005
GO:0007417central nervous system development0.0334465567304005
GO:0050793regulation of developmental process0.0357881651953293
GO:0022403cell cycle phase0.0362255961459274
GO:0030182neuron differentiation0.0362255961459274
GO:0048699generation of neurons0.0389442001231844
GO:0042127regulation of cell proliferation0.0389442001231844
GO:0022008neurogenesis0.040302802762479



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
ectoderm-derived structure1.11e-3095
ectoderm1.11e-3095
presumptive ectoderm1.11e-3095
central nervous system3.82e-3073
nervous system4.16e-3075
neurectoderm7.97e-2764
neural plate7.97e-2764
presumptive neural plate7.97e-2764
ecto-epithelium4.82e-2573
regional part of nervous system9.07e-2454
neural tube9.44e-2352
neural rod9.44e-2352
future spinal cord9.44e-2352
neural keel9.44e-2352
brain3.72e-1947
future brain3.72e-1947
pre-chordal neural plate5.37e-1949
regional part of brain9.67e-1946
structure with developmental contribution from neural crest6.51e-1792
anterior neural tube5.45e-1640
gray matter7.44e-1634
regional part of forebrain1.60e-1539
forebrain1.60e-1539
future forebrain1.60e-1539
brain grey matter1.04e-1229
regional part of telencephalon1.04e-1229
telencephalon1.04e-1229
embryo2.74e-09320
cerebral cortex2.51e-0821
cerebral hemisphere2.51e-0821
pallium2.51e-0821
multi-cellular organism6.04e-08333
posterior neural tube1.68e-0712
chordal neural plate1.68e-0712


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)
MA0003.12.4568
MA0004.10.801718
MA0006.11.46714
MA0007.10.784593
MA0009.11.27673
MA0014.11.93445
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
MA0068.10.343188
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.439282
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
MA0111.10.778753
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
MA0145.10.794492
MA0146.12.07553
MA0147.11.37022
MA0148.10.820161
MA0149.10.722227
MA0062.20.412742
MA0035.20.903829
MA0039.22.6396
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.21.21648
MA0047.20.962424
MA0112.20.29236
MA0065.20.79573
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
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.11.53682
MA0163.10.477233
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.22.59634
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:2852&oldid=3074851"