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MCL coexpression mm9:1674: Difference between revisions

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{{MCL_coexpression_mm9
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morphogenesis during differentiation;0.00901934359550232;20315,13395!GO:0048812;neurite morphogenesis;0.00901934359550232;20315,13395!GO:0000904;cellular morphogenesis during differentiation;0.00901934359550232;20315,13395!GO:0031175;neurite development;0.00901934359550232;20315,13395!GO:0048666;neuron development;0.00901934359550232;20315,13395!GO:0032990;cell part morphogenesis;0.00901934359550232;20315,13395!GO:0048858;cell projection morphogenesis;0.00901934359550232;20315,13395!GO:0030030;cell projection organization and biogenesis;0.00901934359550232;20315,13395!GO:0001667;ameboidal cell migration;0.00901934359550232;20315!GO:0030182;neuron differentiation;0.00901934359550232;20315,13395!GO:0048699;generation of neurons;0.00901934359550232;20315,13395!GO:0008354;germ cell migration;0.00901934359550232;20315!GO:0022008;neurogenesis;0.00901934359550232;20315,13395!GO:0050920;regulation of chemotaxis;0.00901934359550232;20315!GO:0050926;regulation of positive chemotaxis;0.00901934359550232;20315!GO:0050921;positive regulation of chemotaxis;0.00901934359550232;20315!GO:0050927;positive regulation of positive chemotaxis;0.00901934359550232;20315!GO:0050930;induction of positive chemotaxis;0.00901934359550232;20315!GO:0050918;positive chemotaxis;0.009791893617895;20315!GO:0008045;motor axon guidance;0.0104907397135622;20315!GO:0009790;embryonic development;0.0116063327177684;20315,13395!GO:0000902;cell morphogenesis;0.0116063327177684;20315,13395!GO:0032989;cellular structure morphogenesis;0.0116063327177684;20315,13395!GO:0030335;positive regulation of cell migration;0.0125410705591239;20315!GO:0009887;organ morphogenesis;0.0125410705591239;20315,13395!GO:0051272;positive regulation of cell motility;0.0139822882165411;20315!GO:0040017;positive regulation of locomotion;0.0139822882165411;20315!GO:0007399;nervous system development;0.0172446645191495;20315,13395!GO:0001569;patterning of blood vessels;0.017938036737885;20315!GO:0007281;germ cell development;0.0212988683119636;20315!GO:0008009;chemokine activity;0.0281424706336528;20315!GO:0042379;chemokine receptor binding;0.0281424706336528;20315!GO:0009880;embryonic pattern specification;0.0287492167075571;20315!GO:0030334;regulation of cell migration;0.033659692211444;20315!GO:0042472;inner ear morphogenesis;0.033659692211444;13395!GO:0042098;T cell proliferation;0.033659692211444;20315!GO:0001664;G-protein-coupled receptor binding;0.033659692211444;20315!GO:0048754;branching morphogenesis of a tube;0.033659692211444;20315!GO:0051270;regulation of cell motility;0.033659692211444;20315!GO:0042471;ear morphogenesis;0.033659692211444;13395!GO:0001763;morphogenesis of a branching structure;0.033659692211444;20315!GO:0030326;embryonic limb morphogenesis;0.033659692211444;13395!GO:0035113;embryonic appendage morphogenesis;0.033659692211444;13395!GO:0040012;regulation of locomotion;0.033659692211444;20315!GO:0048468;cell 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|gostat_on_MCL_coexpression=GO:0007409;axonogenesis;0.00901934359550232;20315,13395!GO:0048667;neuron morphogenesis during differentiation;0.00901934359550232;20315,13395!GO:0048812;neurite morphogenesis;0.00901934359550232;20315,13395!GO:0000904;cellular morphogenesis during differentiation;0.00901934359550232;20315,13395!GO:0031175;neurite development;0.00901934359550232;20315,13395!GO:0048666;neuron development;0.00901934359550232;20315,13395!GO:0032990;cell part morphogenesis;0.00901934359550232;20315,13395!GO:0048858;cell projection morphogenesis;0.00901934359550232;20315,13395!GO:0030030;cell projection organization and biogenesis;0.00901934359550232;20315,13395!GO:0001667;ameboidal cell migration;0.00901934359550232;20315!GO:0030182;neuron differentiation;0.00901934359550232;20315,13395!GO:0048699;generation of neurons;0.00901934359550232;20315,13395!GO:0008354;germ cell migration;0.00901934359550232;20315!GO:0022008;neurogenesis;0.00901934359550232;20315,13395!GO:0050920;regulation of chemotaxis;0.00901934359550232;20315!GO:0050926;regulation of positive chemotaxis;0.00901934359550232;20315!GO:0050921;positive regulation of chemotaxis;0.00901934359550232;20315!GO:0050927;positive regulation of positive chemotaxis;0.00901934359550232;20315!GO:0050930;induction of positive chemotaxis;0.00901934359550232;20315!GO:0050918;positive chemotaxis;0.009791893617895;20315!GO:0008045;motor axon guidance;0.0104907397135622;20315!GO:0009790;embryonic development;0.0116063327177684;20315,13395!GO:0000902;cell morphogenesis;0.0116063327177684;20315,13395!GO:0032989;cellular structure morphogenesis;0.0116063327177684;20315,13395!GO:0030335;positive regulation of cell migration;0.0125410705591239;20315!GO:0009887;organ morphogenesis;0.0125410705591239;20315,13395!GO:0051272;positive regulation of cell motility;0.0139822882165411;20315!GO:0040017;positive regulation of locomotion;0.0139822882165411;20315!GO:0007399;nervous system development;0.0172446645191495;20315,13395!GO:0001569;patterning of blood vessels;0.017938036737885;20315!GO:0007281;germ cell development;0.0212988683119636;20315!GO:0008009;chemokine activity;0.0281424706336528;20315!GO:0042379;chemokine receptor binding;0.0281424706336528;20315!GO:0009880;embryonic pattern specification;0.0287492167075571;20315!GO:0030334;regulation of cell migration;0.033659692211444;20315!GO:0042472;inner ear morphogenesis;0.033659692211444;13395!GO:0042098;T cell proliferation;0.033659692211444;20315!GO:0001664;G-protein-coupled receptor binding;0.033659692211444;20315!GO:0048754;branching morphogenesis of a tube;0.033659692211444;20315!GO:0051270;regulation of cell motility;0.033659692211444;20315!GO:0042471;ear morphogenesis;0.033659692211444;13395!GO:0001763;morphogenesis of a branching structure;0.033659692211444;20315!GO:0030326;embryonic limb morphogenesis;0.033659692211444;13395!GO:0035113;embryonic appendage morphogenesis;0.033659692211444;13395!GO:0040012;regulation of locomotion;0.033659692211444;20315!GO:0048468;cell development;0.033659692211444;20315,13395!GO:0009653;anatomical structure morphogenesis;0.033659692211444;20315,13395!GO:0048839;inner ear development;0.0343997287833733;13395!GO:0032943;mononuclear cell proliferation;0.0343997287833733;20315!GO:0046651;lymphocyte proliferation;0.0343997287833733;20315!GO:0035107;appendage morphogenesis;0.0343997287833733;13395!GO:0035108;limb morphogenesis;0.0343997287833733;13395!GO:0043583;ear development;0.0343997287833733;13395!GO:0060173;limb development;0.0343997287833733;13395!GO:0048736;appendage development;0.0343997287833733;13395!GO:0007411;axon guidance;0.0343997287833733;20315!GO:0048513;organ development;0.0391832757360438;20315,13395!GO:0042330;taxis;0.0425137244937417;20315!GO:0006935;chemotaxis;0.0425137244937417;20315!GO:0042110;T cell activation;0.0478538696364574;20315!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000014!3.49e-07!5;UBERON:0001003!3.49e-07!5;UBERON:0002097!3.49e-07!5;UBERON:0002199!3.49e-07!5;UBERON:0007029!3.49e-07!5;UBERON:0007376!3.49e-07!5;UBERON:0002416!3.49e-07!5;UBERON:0007383!3.49e-07!5
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.612204,0.529553,0.603273,1.04755,0.618805,0.715644,0.812379,0.310789,0.370407,0.668936,0.702872,1.47559,0.728641,0.424775,0,0.930881,0.397593,0.775038,0.185796,0.489529,0.874994,0.727684,0.404661,0.537749,1.78963,0.754069,0.641282,0.456327,0.645258,0.626183,1.03545,1.02297,0.253145,1.08876,2.23015,0.384813,0.699032,0.360612,2.39139,0.401916,0.631725,0.134724,1.09239,0.227872,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.827208,0.152094,1.23259,1.31774,0.686172,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,0.0793594,0.0882907,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,1.75016,1.7727,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,1.03353,0.328405,0.607321,0.932233,0.991416,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,6.02585,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.651755,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.997706,0.701187,0.745913
|tfbs_overrepresentation_jaspar=MA0003.1;0.211284,MA0004.1;0.603793,MA0006.1;0.419915,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;0.736185,MA0017.1;0.449113,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;0.43138,MA0029.1;0.995171,MA0030.1;1.00195,MA0031.1;0.965177,MA0038.1;0.757669,MA0040.1;1.07552,MA0041.1;0.522007,MA0042.1;0.507715,MA0043.1;1.1618,MA0046.1;1.09955,MA0048.1;0.593503,MA0050.1;0.645342,MA0051.1;0.767098,MA0052.1;1.08379,MA0055.1;2.06693,MA0056.1;0,MA0057.1;0.192781,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.330907,MA0061.1;0.364227,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;0.197245,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;1.06547,MA0073.1;0.103695,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;0.53877,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;0.148348,MA0089.1;0,MA0090.1;0.566938,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;0.440484,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;0.460936,MA0105.1;0.248108,MA0106.1;0.809991,MA0107.1;0.454197,MA0108.2;0.897859,MA0109.1;0,MA0111.1;0.582193,MA0113.1;0.780358,MA0114.1;0.361633,MA0115.1;1.16466,MA0116.1;0.419688,MA0117.1;1.13165,MA0119.1;1.30068,MA0122.1;1.15196,MA0124.1;1.35963,MA0125.1;1.28445,MA0130.1;0,MA0131.1;0.869325,MA0132.1;0,MA0133.1;0,MA0135.1;1.19898,MA0136.1;0.729175,MA0139.1;0.295945,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;0.365053,MA0145.1;0.157686,MA0146.1;0.21827,MA0147.1;0.378658,MA0148.1;0.621195,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.285933,MA0138.2;0.861035,MA0002.2;1.47075,MA0137.2;0.479301,MA0104.2;0.315156,MA0047.2;0.75686,MA0112.2;0.47695,MA0065.2;0.477991,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;0.587595,MA0155.1;0.515751,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;0.389847,MA0160.1;0.624415,MA0161.1;0,MA0162.1;0.526186,MA0163.1;0.0644585,MA0164.1;0.729558,MA0080.2;0.455167,MA0018.2;0.739807,MA0099.2;0.854449,MA0079.2;2.32359,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.366802,MA0442.1;0
}}

Latest revision as of 17:19, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:102809727..102809760,-p@chr15:102809727..102809760
-
Mm9::chr15:77776195..77776210,-p5@Foxred2
Mm9::chr6:117118584..117118602,+p1@Cxcl12
Mm9::chr6:117123590..117123595,+p@chr6:117123590..117123595
+
Mm9::chr6:6831986..6832007,-p4@Dlx5


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:0007409axonogenesis0.00901934359550232
GO:0048667neuron morphogenesis during differentiation0.00901934359550232
GO:0048812neurite morphogenesis0.00901934359550232
GO:0000904cellular morphogenesis during differentiation0.00901934359550232
GO:0031175neurite development0.00901934359550232
GO:0048666neuron development0.00901934359550232
GO:0032990cell part morphogenesis0.00901934359550232
GO:0048858cell projection morphogenesis0.00901934359550232
GO:0030030cell projection organization and biogenesis0.00901934359550232
GO:0001667ameboidal cell migration0.00901934359550232
GO:0030182neuron differentiation0.00901934359550232
GO:0048699generation of neurons0.00901934359550232
GO:0008354germ cell migration0.00901934359550232
GO:0022008neurogenesis0.00901934359550232
GO:0050920regulation of chemotaxis0.00901934359550232
GO:0050926regulation of positive chemotaxis0.00901934359550232
GO:0050921positive regulation of chemotaxis0.00901934359550232
GO:0050927positive regulation of positive chemotaxis0.00901934359550232
GO:0050930induction of positive chemotaxis0.00901934359550232
GO:0050918positive chemotaxis0.009791893617895
GO:0008045motor axon guidance0.0104907397135622
GO:0009790embryonic development0.0116063327177684
GO:0000902cell morphogenesis0.0116063327177684
GO:0032989cellular structure morphogenesis0.0116063327177684
GO:0030335positive regulation of cell migration0.0125410705591239
GO:0009887organ morphogenesis0.0125410705591239
GO:0051272positive regulation of cell motility0.0139822882165411
GO:0040017positive regulation of locomotion0.0139822882165411
GO:0007399nervous system development0.0172446645191495
GO:0001569patterning of blood vessels0.017938036737885
GO:0007281germ cell development0.0212988683119636
GO:0008009chemokine activity0.0281424706336528
GO:0042379chemokine receptor binding0.0281424706336528
GO:0009880embryonic pattern specification0.0287492167075571
GO:0030334regulation of cell migration0.033659692211444
GO:0042472inner ear morphogenesis0.033659692211444
GO:0042098T cell proliferation0.033659692211444
GO:0001664G-protein-coupled receptor binding0.033659692211444
GO:0048754branching morphogenesis of a tube0.033659692211444
GO:0051270regulation of cell motility0.033659692211444
GO:0042471ear morphogenesis0.033659692211444
GO:0001763morphogenesis of a branching structure0.033659692211444
GO:0030326embryonic limb morphogenesis0.033659692211444
GO:0035113embryonic appendage morphogenesis0.033659692211444
GO:0040012regulation of locomotion0.033659692211444
GO:0048468cell development0.033659692211444
GO:0009653anatomical structure morphogenesis0.033659692211444
GO:0048839inner ear development0.0343997287833733
GO:0032943mononuclear cell proliferation0.0343997287833733
GO:0046651lymphocyte proliferation0.0343997287833733
GO:0035107appendage morphogenesis0.0343997287833733
GO:0035108limb morphogenesis0.0343997287833733
GO:0043583ear development0.0343997287833733
GO:0060173limb development0.0343997287833733
GO:0048736appendage development0.0343997287833733
GO:0007411axon guidance0.0343997287833733
GO:0048513organ development0.0391832757360438
GO:0042330taxis0.0425137244937417
GO:0006935chemotaxis0.0425137244937417
GO:0042110T cell activation0.0478538696364574



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
zone of skin3.49e-075
skin epidermis3.49e-075
skin of body3.49e-075
integument3.49e-075
surface3.49e-075
outer epithelium3.49e-075
integumental system3.49e-075
enveloping layer of ectoderm3.49e-075


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)
MA0003.10.211284
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.736185
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.10.593503
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.12.06693
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.103695
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.11.30068
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.295945
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.157686
MA0146.10.21827
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.285933
MA0138.20.861035
MA0002.21.47075
MA0137.20.479301
MA0104.20.315156
MA0047.20.75686
MA0112.20.47695
MA0065.20.477991
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.587595
MA0155.10.515751
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.526186
MA0163.10.0644585
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.22.32359
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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