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MCL coexpression mm9:904: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000073!5.97e-33!54;UBERON:0002346!8.60e-32!64;UBERON:0003075!8.60e-32!64;UBERON:0007284!8.60e-32!64;UBERON:0001017!6.83e-31!73;UBERON:0001049!2.12e-30!52;UBERON:0005068!2.12e-30!52;UBERON:0006241!2.12e-30!52;UBERON:0007135!2.12e-30!52;UBERON:0001016!1.47e-29!75;UBERON:0010371!6.33e-27!73;UBERON:0002020!1.21e-26!34;UBERON:0004121!3.11e-26!95;UBERON:0000924!3.11e-26!95;UBERON:0006601!3.11e-26!95;UBERON:0000955!3.98e-25!47;UBERON:0006238!3.98e-25!47;UBERON:0002616!2.17e-24!46;UBERON:0003056!3.77e-23!49;UBERON:0003080!1.21e-22!40;UBERON:0002780!9.46e-22!39;UBERON:0001890!9.46e-22!39;UBERON:0006240!9.46e-22!39;UBERON:0003528!1.63e-21!29;UBERON:0002791!1.63e-21!29;UBERON:0001893!1.63e-21!29;UBERON:0010314!1.57e-18!92;UBERON:0000956!5.46e-14!21;UBERON:0001869!5.46e-14!21;UBERON:0000203!5.46e-14!21;UBERON:0002021!7.70e-12!10;UBERON:0000411!7.70e-12!10;UBERON:0001950!7.70e-12!10;UBERON:0002619!4.81e-11!17;UBERON:0002420!7.33e-09!8;UBERON:0007245!7.33e-09!8;UBERON:0010009!7.33e-09!8;UBERON:0010011!7.33e-09!8;UBERON:0000454!7.33e-09!8;UBERON:0003076!4.30e-08!12;UBERON:0003057!4.30e-08!12;UBERON:0002240!3.73e-07!6;UBERON:0005174!3.73e-07!6;UBERON:0001137!3.73e-07!6
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.121181,0.367606,0.434198,0.260188,0.448401,0.538088,0.515265,0.535519,0.170907,0.494602,0.526159,0.515774,0.550255,0.275867,0,0.742571,0.252772,0.160384,1.03863,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,0.153291,0.469052,0.303071,0.376624,0.455168,0.843667,0.250677,0.425071,0.276324,0.363049,0.242032,0.522578,0.221921,0.195877,0.712303,0.460258,0.450632,0.761266,0.209497,0.423266,0.662995,0.484612,0.386968,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.844204,0.513517,0.447041,0.555328,0.823643,0.613749,1.067,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.178433,0.0665967,1.03623,0.140213,0.131016,0.136938,0.651651,0.806481,0.336166,0.530481,0.759925,0.612313,0.501608,0.920903,0.025519,0.123242,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.733735,0.218233,0.202284,0.1711,0.859272,0.663249,0.101559,0.679141,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.0359654,0.437894,0.743872,1.24715,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,1.04134,0.261837,0.120154,0.0553085,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.0131724
|tfbs_overrepresentation_jaspar=MA0003.1;0.00271136,MA0004.1;0.434673,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;0.012738,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;1.88628,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.360875,MA0042.1;0.919611,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;0.102483,MA0050.1;0.472794,MA0051.1;0.586414,MA0052.1;0.890676,MA0055.1;0.0283571,MA0056.1;0,MA0057.1;0.0935008,MA0058.1;0.341628,MA0059.1;0.353484,MA0060.1;0.197678,MA0061.1;0.224905,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;1.09399,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;1.38205,MA0074.1;0.531046,MA0076.1;0.845594,MA0077.1;0.851175,MA0078.1;0.61926,MA0081.1;0.375851,MA0083.1;0.96604,MA0084.1;1.54225,MA0087.1;0.922929,MA0088.1;0.064239,MA0089.1;0,MA0090.1;0.401197,MA0091.1;1.98602,MA0092.1;0.401504,MA0093.1;0.289361,MA0095.1;0,MA0098.1;0,MA0100.1;0.519598,MA0101.1;0.362124,MA0103.1;0.307078,MA0105.1;0.133231,MA0106.1;0.626997,MA0107.1;0.301222,MA0108.2;0.710846,MA0109.1;0,MA0111.1;0.415012,MA0113.1;0.598933,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;1.79662,MA0143.1;0.615203,MA0144.1;0.225588,MA0145.1;0.0701568,MA0146.1;0.0169049,MA0147.1;0.236889,MA0148.1;0.450593,MA0149.1;0.962263,MA0062.2;0.137653,MA0035.2;1.30087,MA0039.2;0.00106576,MA0138.2;0.675599,MA0002.2;1.56981,MA0137.2;0.32312,MA0104.2;0.18504,MA0047.2;0.576767,MA0112.2;0.2464,MA0065.2;0.247168,MA0150.1;0.419883,MA0151.1;0,MA0152.1;1.41249,MA0153.1;1.01988,MA0154.1;0.100744,MA0155.1;0.0804339,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;0.688775,MA0160.1;0.453546,MA0161.1;0,MA0162.1;0.0211019,MA0163.1;0.0186439,MA0164.1;1.35808,MA0080.2;0.816435,MA0018.2;0.560731,MA0099.2;0.669311,MA0079.2;0.000285071,MA0102.2;1.59466,MA0258.1;0.210437,MA0259.1;0.227035,MA0442.1;0
}}

Latest revision as of 16:04, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:36444871..36444875,-p@chr11:36444871..36444875
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Mm9::chr12:110802909..110802925,+p@chr12:110802909..110802925
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Mm9::chr16:14100128..14100139,+p@chr16:14100128..14100139
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Mm9::chr16:81203618..81203621,+p@chr16:81203618..81203621
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Mm9::chr17:37191115..37191135,-p@chr17:37191115..37191135
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Mm9::chr17:90828590..90828596,-p@chr17:90828590..90828596
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Mm9::chr2:158209586..158209595,+p@chr2:158209586..158209595
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Mm9::chr2:42499343..42499347,-p@chr2:42499343..42499347
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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

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
regional part of nervous system5.97e-3354
neurectoderm8.60e-3264
neural plate8.60e-3264
presumptive neural plate8.60e-3264
central nervous system6.83e-3173
neural tube2.12e-3052
neural rod2.12e-3052
future spinal cord2.12e-3052
neural keel2.12e-3052
nervous system1.47e-2975
ecto-epithelium6.33e-2773
gray matter1.21e-2634
ectoderm-derived structure3.11e-2695
ectoderm3.11e-2695
presumptive ectoderm3.11e-2695
brain3.98e-2547
future brain3.98e-2547
regional part of brain2.17e-2446
pre-chordal neural plate3.77e-2349
anterior neural tube1.21e-2240
regional part of forebrain9.46e-2239
forebrain9.46e-2239
future forebrain9.46e-2239
brain grey matter1.63e-2129
regional part of telencephalon1.63e-2129
telencephalon1.63e-2129
structure with developmental contribution from neural crest1.57e-1892
cerebral cortex5.46e-1421
cerebral hemisphere5.46e-1421
pallium5.46e-1421
occipital lobe7.70e-1210
visual cortex7.70e-1210
neocortex7.70e-1210
regional part of cerebral cortex4.81e-1117
basal ganglion7.33e-098
nuclear complex of neuraxis7.33e-098
aggregate regional part of brain7.33e-098
collection of basal ganglia7.33e-098
cerebral subcortex7.33e-098
posterior neural tube4.30e-0812
chordal neural plate4.30e-0812
spinal cord3.73e-076
dorsal region element3.73e-076
dorsum3.73e-076


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)
MA0003.10.00271136
MA0004.10.434673
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.10.012738
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
MA0029.11.88628
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.919611
MA0043.10.966833
MA0046.10.906029
MA0048.10.102483
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.10.0283571
MA0056.10
MA0057.10.0935008
MA0058.10.341628
MA0059.10.353484
MA0060.10.197678
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.11.09399
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.11.38205
MA0074.10.531046
MA0076.10.845594
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.064239
MA0089.10
MA0090.10.401197
MA0091.11.98602
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.307078
MA0105.10.133231
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
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
MA0142.11.79662
MA0143.10.615203
MA0144.10.225588
MA0145.10.0701568
MA0146.10.0169049
MA0147.10.236889
MA0148.10.450593
MA0149.10.962263
MA0062.20.137653
MA0035.21.30087
MA0039.20.00106576
MA0138.20.675599
MA0002.21.56981
MA0137.20.32312
MA0104.20.18504
MA0047.20.576767
MA0112.20.2464
MA0065.20.247168
MA0150.10.419883
MA0151.10
MA0152.11.41249
MA0153.11.01988
MA0154.10.100744
MA0155.10.0804339
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.688775
MA0160.10.453546
MA0161.10
MA0162.10.0211019
MA0163.10.0186439
MA0164.11.35808
MA0080.20.816435
MA0018.20.560731
MA0099.20.669311
MA0079.20.000285071
MA0102.21.59466
MA0258.10.210437
MA0259.10.227035
MA0442.10
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