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MCL coexpression mm9:856: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0005080;protein kinase C binding;0.0207043861153407;22628!GO:0016272;prefoldin complex;0.0207043861153407;18637!GO:0019901;protein kinase binding;0.0444163745222791;22628!GO:0019900;kinase binding;0.0444163745222791;22628!GO:0019904;protein domain specific binding;0.0444163745222791;22628!GO:0051082;unfolded protein binding;0.0444163745222791;18637!}}
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kinase C binding;0.0207043861153407;22628!GO:0016272;prefoldin complex;0.0207043861153407;18637!GO:0019901;protein kinase binding;0.0444163745222791;22628!GO:0019900;kinase binding;0.0444163745222791;22628!GO:0019904;protein domain specific binding;0.0444163745222791;22628!GO:0051082;unfolded protein binding;0.0444163745222791;18637!|ontology_enrichment_celltype=CL:0000055!2.51e-18!49;CL:0000393!7.96e-18!39;CL:0000211!7.96e-18!39;CL:0002319!9.13e-17!43;CL:0000540!1.90e-16!33;CL:0000047!1.90e-16!33;CL:0000031!1.90e-16!33;CL:0000404!1.90e-16!33;CL:0000221!3.10e-16!44;CL:0000133!3.10e-16!44;CL:0000117!6.94e-15!23;CL:0000337!6.94e-15!23;CL:0002321!3.80e-08!70|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0001017!5.35e-30!73;UBERON:0001016!7.49e-30!75;UBERON:0000073!7.16e-24!54;UBERON:0004121!1.63e-23!95;UBERON:0000924!1.63e-23!95;UBERON:0006601!1.63e-23!95;UBERON:0001049!3.59e-22!52;UBERON:0005068!3.59e-22!52;UBERON:0006241!3.59e-22!52;UBERON:0007135!3.59e-22!52;UBERON:0002346!1.54e-21!64;UBERON:0003075!1.54e-21!64;UBERON:0007284!1.54e-21!64;UBERON:0002020!7.66e-20!34;UBERON:0010314!1.45e-19!92;UBERON:0000955!9.94e-19!47;UBERON:0006238!9.94e-19!47;UBERON:0002616!2.68e-18!46;UBERON:0003080!7.91e-18!40;UBERON:0010371!1.40e-17!73;UBERON:0002780!2.24e-17!39;UBERON:0001890!2.24e-17!39;UBERON:0006240!2.24e-17!39;UBERON:0003056!1.05e-16!49;UBERON:0003528!1.82e-16!29;UBERON:0002791!1.82e-16!29;UBERON:0001893!1.82e-16!29;UBERON:0000956!8.69e-12!21;UBERON:0001869!8.69e-12!21;UBERON:0000203!8.69e-12!21;UBERON:0000025!4.85e-10!114;UBERON:0002619!8.75e-10!17;UBERON:0004111!5.60e-08!122;UBERON:0002021!1.92e-07!10;UBERON:0000411!1.92e-07!10;UBERON:0001950!1.92e-07!10|tfbs_overrepresentation_for_novel_motifs=0.393008,5.93598,0.367606,0.434198,0.720982,0.448401,0.538088,0.991481,0.181564,0.170907,0.494602,0.526159,0.515774,0.550255,0.275867,0,0.742571,1.30041,0.938682,0.29826,0.883862,0.223663,0.549359,0.717658,0.374936,0.577606,0.153291,0.469052,0.303071,0.757024,0.455168,0.843667,0.699026,1.96246,0.276324,1.25792,0.242032,0.522578,0.221921,0.195877,0.712303,1.16427,0.450632,1.39283,0.0183213,0.423266,0.662995,0.484612,0.170971,0.825035,0.725127,0.604356,0.362495,0.985264,1.00271,1.37128,0.314394,0.513517,0.447041,0.555328,0.823643,0.613749,0.560836,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.0665967,1.03623,0.140213,0.409836,0.136938,0.651651,1.89011,0.336166,2.29238,0.759925,0.612313,0.167672,0.920903,0.108172,0.0299392,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,1.10739,0.1711,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,1.72336,0.724668,0.459825,4.42621,1.20804,0.340849,0.333829,0.386136,0.96962,0.895335,0.499714,1.21576,0.254749,0.603195,0.437894,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,2.03014,0.666107,1.9792,0.403515,0.261837,0.381863,0.0553085,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.998505,0.714896,0.562634,0.240994,0.524587,0.0131724|tfbs_overrepresentation_jaspar=MA0003.1;0.127295,MA0004.1;0.434673,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;0.325341,MA0017.1;0.296816,MA0019.1;0.688051,MA0024.1;0.826339,MA0025.1;1.10341,MA0027.1;2.51754,MA0028.1;0.281528,MA0029.1;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.360875,MA0042.1;0.348174,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;0.335404,MA0050.1;0.472794,MA0051.1;0.586414,MA0052.1;0.890676,MA0055.1;1.64072,MA0056.1;0,MA0057.1;0.0935008,MA0058.1;0.341628,MA0059.1;2.51175,MA0060.1;0.574356,MA0061.1;0.224905,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;0.0965831,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;0.000755986,MA0074.1;0.531046,MA0076.1;0.315013,MA0077.1;0.851175,MA0078.1;2.54989,MA0081.1;0.375851,MA0083.1;0.96604,MA0084.1;1.54225,MA0087.1;0.922929,MA0088.1;0.229377,MA0089.1;0,MA0090.1;0.401197,MA0091.1;0.447561,MA0092.1;0.401504,MA0093.1;0.289361,MA0095.1;0,MA0098.1;0,MA0100.1;0.519598,MA0101.1;0.362124,MA0103.1;1.49915,MA0105.1;0.823589,MA0106.1;0.626997,MA0107.1;0.301222,MA0108.2;0.710846,MA0109.1;0,MA0111.1;0.415012,MA0113.1;3.63035,MA0114.1;0.222763,MA0115.1;0.969632,MA0116.1;0.27152,MA0117.1;0.937363,MA0119.1;0.362692,MA0122.1;0.957212,MA0124.1;1.16127,MA0125.1;1.0872,MA0130.1;0,MA0131.1;0.683521,MA0132.1;0,MA0133.1;0,MA0135.1;1.00325,MA0136.1;0.550755,MA0139.1;0.169849,MA0140.1;0.519484,MA0141.1;0.325895,MA0142.1;0.761136,MA0143.1;0.615203,MA0144.1;0.225588,MA0145.1;0.0701568,MA0146.1;0.0169049,MA0147.1;0.666991,MA0148.1;0.450593,MA0149.1;0.367458,MA0062.2;0.137653,MA0035.2;1.30087,MA0039.2;0.00752803,MA0138.2;0.675599,MA0002.2;0.513194,MA0137.2;0.32312,MA0104.2;0.18504,MA0047.2;0.576767,MA0112.2;0.90045,MA0065.2;0.247168,MA0150.1;0.419883,MA0151.1;0,MA0152.1;0.576873,MA0153.1;1.01988,MA0154.1;0.330759,MA0155.1;0.0804339,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;0.246253,MA0160.1;0.453546,MA0161.1;0,MA0162.1;0.0211019,MA0163.1;0.0186439,MA0164.1;0.551114,MA0080.2;0.302064,MA0018.2;0.560731,MA0099.2;0.669311,MA0079.2;0.0137335,MA0102.2;1.59466,MA0258.1;1.78339,MA0259.1;1.2032,MA0442.1;0}}

Latest revision as of 16:00, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126628600..126628612,-p@chr10:126628600..126628612
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Mm9::chr1:173286693..173286705,+p3@Pfdn2
Mm9::chr5:136387174..136387192,-p@chr5:136387174..136387192
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Mm9::chr5:136387318..136387336,-p@chr5:136387318..136387336
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Mm9::chr5:136387343..136387354,-p@chr5:136387343..136387354
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Mm9::chr5:136387416..136387428,-p@chr5:136387416..136387428
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Mm9::chr5:136387440..136387453,-p@chr5:136387440..136387453
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Mm9::chr7:31229435..31229449,-p@chr7:31229435..31229449
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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:0005080protein kinase C binding0.0207043861153407
GO:0016272prefoldin complex0.0207043861153407
GO:0019901protein kinase binding0.0444163745222791
GO:0019900kinase binding0.0444163745222791
GO:0019904protein domain specific binding0.0444163745222791
GO:0051082unfolded protein binding0.0444163745222791



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
central nervous system5.35e-3073
nervous system7.49e-3075
regional part of nervous system7.16e-2454
ectoderm-derived structure1.63e-2395
ectoderm1.63e-2395
presumptive ectoderm1.63e-2395
neural tube3.59e-2252
neural rod3.59e-2252
future spinal cord3.59e-2252
neural keel3.59e-2252
neurectoderm1.54e-2164
neural plate1.54e-2164
presumptive neural plate1.54e-2164
gray matter7.66e-2034
structure with developmental contribution from neural crest1.45e-1992
brain9.94e-1947
future brain9.94e-1947
regional part of brain2.68e-1846
anterior neural tube7.91e-1840
ecto-epithelium1.40e-1773
regional part of forebrain2.24e-1739
forebrain2.24e-1739
future forebrain2.24e-1739
pre-chordal neural plate1.05e-1649
brain grey matter1.82e-1629
regional part of telencephalon1.82e-1629
telencephalon1.82e-1629
cerebral cortex8.69e-1221
cerebral hemisphere8.69e-1221
pallium8.69e-1221
tube4.85e-10114
regional part of cerebral cortex8.75e-1017
anatomical conduit5.60e-08122
occipital lobe1.92e-0710
visual cortex1.92e-0710
neocortex1.92e-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)
MA0003.10.127295
MA0004.10.434673
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.10.325341
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.10.335404
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.11.64072
MA0056.10
MA0057.10.0935008
MA0058.10.341628
MA0059.12.51175
MA0060.10.574356
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.000755986
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.12.54989
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.229377
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.11.49915
MA0105.10.823589
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.13.63035
MA0114.10.222763
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.362692
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.169849
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.0701568
MA0146.10.0169049
MA0147.10.666991
MA0148.10.450593
MA0149.10.367458
MA0062.20.137653
MA0035.21.30087
MA0039.20.00752803
MA0138.20.675599
MA0002.20.513194
MA0137.20.32312
MA0104.20.18504
MA0047.20.576767
MA0112.20.90045
MA0065.20.247168
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.330759
MA0155.10.0804339
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.10.453546
MA0161.10
MA0162.10.0211019
MA0163.10.0186439
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.20.669311
MA0079.20.0137335
MA0102.21.59466
MA0258.11.78339
MA0259.11.2032
MA0442.10
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