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MCL coexpression mm9:227: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001723!4.39e-09!1;UBERON:0001033!4.39e-09!1;UBERON:0010056!4.39e-09!1;UBERON:0000996!1.05e-08!1;UBERON:0002048!1.81e-08!14;UBERON:0000117!1.81e-08!14;UBERON:0000171!1.81e-08!14;UBERON:0000170!1.81e-08!14;UBERON:0005597!1.81e-08!14;UBERON:0000118!1.81e-08!14;UBERON:0000945!7.94e-08!16;UBERON:0010039!7.94e-08!16;UBERON:0005153!5.14e-07!17;UBERON:0005178!5.14e-07!17;UBERON:0005181!5.14e-07!17;UBERON:0002224!5.14e-07!17;UBERON:0000915!5.14e-07!17;UBERON:0008947!5.14e-07!17;UBERON:0003258!5.14e-07!17;UBERON:0000161!5.54e-07!5
|tfbs_overrepresentation_for_novel_motifs=0.151831,0.00480564,0.0314532,0.753018,0.739175,0.0572693,0.0952729,0.784229,0.238802,0.0347989,0.0756719,0.300876,0.364057,1.12536,0.813138,0,0.21295,6.11272,0.697386,0.0185392,0.743292,0.313201,0.100698,0.135555,0.316915,0.114891,0.288124,0.232096,0.0168238,0.17064,0.216418,1.41436,0.125372,0.231055,0.0122911,0.0941706,0.00771544,0.0880362,0.0920623,0.278912,2.68332,0.222116,1.06663,0.160928,0.128683,0.0483533,0.162636,0.534064,2.01732,0.391067,0.201485,0.404907,0.394991,0.392852,0.40698,0.341117,0.214883,0.285084,0.411554,0.103627,0.26911,0.134246,0.914015,0.194216,0.110181,0.220804,0.521479,0.838102,0.265754,0.701582,0.0267764,0.580524,4.10755e-05,0.434495,0.025477,0.50674,1.94023,0.920035,3.71593,0.249852,0.0520586,0.224583,0.133452,0.52347,0.341929,7.85251e-06,0.000506803,0.00375189,0.496452,0.992074,0.58241,0.345795,0.293074,0.144661,0.00529889,0.161687,0.769619,0.295154,0.162789,0.875402,0.114947,0.283447,0.378871,0.584385,6.98401,0.0615796,0.241325,0.245505,0.105476,0.0998343,0.0366394,0.380295,0.473185,0.0778637,0.588645,0.130467,0.00876625,0.0534465,0.213814,1.6167,0.438969,2.30336,0.11583,0.155368,0.636966,0.259474,0.326497,0.288075,0.520169,1.87925,0.365383,0.0496427,0.494785,0.111453,1.47762,0.0371789,0.0411839,0.485698,0.564325,1.34996,0.961602,0.525552,1.26435,0.291349,0.572722,0.835047,0.164504,1.31106,5.09757,0.139552,0.000511123,1.80557e-05,0.394118,0.00440785,0.110984,1.16675,4.06992,0.0662322,0.0379579,0.041099,0.572691,1.62071,0.720067,0.0360007,0.567625,0.707665,0.650787,0.0889586,0.0255306
|tfbs_overrepresentation_jaspar=MA0003.1;5.18152e-06,MA0004.1;0.194081,MA0006.1;0.0115969,MA0007.1;2.61878,MA0009.1;0.30322,MA0014.1;3.78953e-07,MA0017.1;1.27094,MA0019.1;0.177916,MA0024.1;0.271054,MA0025.1;0.490939,MA0027.1;1.84332,MA0028.1;0.0625976,MA0029.1;0.255531,MA0030.1;0.260188,MA0031.1;0.235297,MA0038.1;0.114851,MA0040.1;0.312625,MA0041.1;0.0296784,MA0042.1;0.0264884,MA0043.1;0.37807,MA0046.1;0.330453,MA0048.1;0.0281682,MA0050.1;0.0666657,MA0051.1;0.119487,MA0052.1;0.318728,MA0055.1;0.00041637,MA0056.1;0,MA0057.1;0.00157297,MA0058.1;0.779829,MA0059.1;1.19768,MA0060.1;0.153333,MA0061.1;0.578755,MA0063.1;0,MA0066.1;1.18027,MA0067.1;0.587517,MA0068.1;0.00177754,MA0069.1;0.318986,MA0070.1;0.311646,MA0071.1;0.0663363,MA0072.1;0.823673,MA0073.1;4.85064e-11,MA0074.1;1.56982,MA0076.1;0.0191324,MA0077.1;0.289168,MA0078.1;1.965,MA0081.1;0.135744,MA0083.1;0.377437,MA0084.1;0.888928,MA0087.1;0.343502,MA0088.1;0.042022,MA0089.1;0,MA0090.1;0.0411793,MA0091.1;0.794118,MA0092.1;0.654812,MA0093.1;0.177315,MA0095.1;0,MA0098.1;0,MA0100.1;0.0866769,MA0101.1;0.541516,MA0103.1;1.33448,MA0105.1;0.218476,MA0106.1;0.141662,MA0107.1;2.16822,MA0108.2;0.192275,MA0109.1;0,MA0111.1;0.173598,MA0113.1;0.792641,MA0114.1;1.13193,MA0115.1;0.380305,MA0116.1;0.521454,MA0117.1;0.354763,MA0119.1;0.0301518,MA0122.1;0.370415,MA0124.1;0.540789,MA0125.1;0.477172,MA0130.1;0,MA0131.1;0.175114,MA0132.1;0,MA0133.1;0,MA0135.1;0.407424,MA0136.1;0.332458,MA0139.1;0.0132055,MA0140.1;0.0866252,MA0141.1;1.89676,MA0142.1;0.225403,MA0143.1;0.135052,MA0144.1;0.368602,MA0145.1;0.00907015,MA0146.1;1.09013e-05,MA0147.1;0.108806,MA0148.1;0.0580838,MA0149.1;0.0314134,MA0062.2;0.000890599,MA0035.2;0.0887515,MA0039.2;1.62786e-07,MA0138.2;0.170255,MA0002.2;1.69886,MA0137.2;0.228652,MA0104.2;0.0566401,MA0047.2;0.740462,MA0112.2;0.00906891,MA0065.2;0.381556,MA0150.1;0.178585,MA0151.1;0,MA0152.1;0.114512,MA0153.1;0.42102,MA0154.1;0.325568,MA0155.1;0.216825,MA0156.1;0.675652,MA0157.1;0.589667,MA0158.1;0,MA0159.1;0.674753,MA0160.1;0.214615,MA0161.1;0,MA0162.1;2.23315e-07,MA0163.1;0.0306181,MA0164.1;0.101555,MA0080.2;0.381431,MA0018.2;0.10631,MA0099.2;0.498573,MA0079.2;0,MA0102.2;0.938682,MA0258.1;0.0263373,MA0259.1;0.2096,MA0442.1;0
}}

Latest revision as of 14:55, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:57071461..57071501,-p1@2310005G13Rik
Mm9::chr2:154035633..154035674,-p@chr2:154035633..154035674
-
Mm9::chr2:154038709..154038714,+p@chr2:154038709..154038714
+
Mm9::chr2:154038751..154038761,+p@chr2:154038751..154038761
+
Mm9::chr2:154039779..154039792,-p@chr2:154039779..154039792
-
Mm9::chr2:154039803..154039816,-p@chr2:154039803..154039816
-
Mm9::chr2:154041979..154042003,-p@chr2:154041979..154042003
-
Mm9::chr2:154046048..154046062,-p@chr2:154046048..154046062
-
Mm9::chr7:149031265..149031275,+p@chr7:149031265..149031275
+
Mm9::chr7:149042604..149042615,+p@chr7:149042604..149042615
+
Mm9::chr7:149042689..149042700,+p@chr7:149042689..149042700
+
Mm9::chr7:149043428..149043437,+p@chr7:149043428..149043437
+
Mm9::chr7:149043552..149043564,+p@chr7:149043552..149043564
+
Mm9::chr7:149043756..149043772,+p@chr7:149043756..149043772
+
Mm9::chr7:149044251..149044295,+p@chr7:149044251..149044295
+
Mm9::chr7:149044756..149044796,+p@chr7:149044756..149044796
+
Mm9::chr7:149045049..149045059,+p@chr7:149045049..149045059
+
Mm9::chr7:149047027..149047030,+p@chr7:149047027..149047030
+
Mm9::chr7:149047266..149047270,+p@chr7:149047266..149047270
+
Mm9::chr7:149047456..149047466,+p@chr7:149047456..149047466
+
Mm9::chr7:149047471..149047481,+p@chr7:149047471..149047481
+
Mm9::chr7:149047581..149047592,+p@chr7:149047581..149047592
+
Mm9::chr7:149047616..149047623,+p@chr7:149047616..149047623
+
Mm9::chr7:149047670..149047673,+p@chr7:149047670..149047673
+
Mm9::chr7:149047754..149047776,+p@chr7:149047754..149047776
+
Mm9::chr7:149047896..149047905,+p@chr7:149047896..149047905
+
Mm9::chr7:149047915..149047920,+p@chr7:149047915..149047920
+
Mm9::chr7:149047963..149047968,+p@chr7:149047963..149047968
+
Mm9::chr7:149048878..149048892,+p@chr7:149048878..149048892
+
Mm9::chr7:149049647..149049661,+p@chr7:149049647..149049661
+
Mm9::chr7:149050066..149050071,+p@chr7:149050066..149050071
+
Mm9::chr7:149050258..149050299,+p@chr7:149050258..149050299
+
Mm9::chr7:149050489..149050500,+p@chr7:149050489..149050500
+
Mm9::chr7:149050604..149050614,+p@chr7:149050604..149050614
+
Mm9::chr7:149050778..149050788,+p@chr7:149050778..149050788
+
Mm9::chr7:149050881..149050889,+p@chr7:149050881..149050889
+
Mm9::chr7:149050916..149050921,+p@chr7:149050916..149050921
+
Mm9::chr7:149052676..149052682,+p@chr7:149052676..149052682
+


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
tongue4.39e-091
gustatory system4.39e-091
future tongue4.39e-091
vagina1.05e-081
lung1.81e-0814
respiratory tube1.81e-0814
respiration organ1.81e-0814
pair of lungs1.81e-0814
lung primordium1.81e-0814
lung bud1.81e-0814
stomach7.94e-0816
food storage organ7.94e-0816
epithelial bud5.14e-0717
thoracic cavity element5.14e-0717
thoracic segment organ5.14e-0717
thoracic cavity5.14e-0717
thoracic segment of trunk5.14e-0717
respiratory primordium5.14e-0717
endoderm of foregut5.14e-0717
orifice5.54e-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)
MA0003.15.18152e-06
MA0004.10.194081
MA0006.10.0115969
MA0007.12.61878
MA0009.10.30322
MA0014.13.78953e-07
MA0017.11.27094
MA0019.10.177916
MA0024.10.271054
MA0025.10.490939
MA0027.11.84332
MA0028.10.0625976
MA0029.10.255531
MA0030.10.260188
MA0031.10.235297
MA0038.10.114851
MA0040.10.312625
MA0041.10.0296784
MA0042.10.0264884
MA0043.10.37807
MA0046.10.330453
MA0048.10.0281682
MA0050.10.0666657
MA0051.10.119487
MA0052.10.318728
MA0055.10.00041637
MA0056.10
MA0057.10.00157297
MA0058.10.779829
MA0059.11.19768
MA0060.10.153333
MA0061.10.578755
MA0063.10
MA0066.11.18027
MA0067.10.587517
MA0068.10.00177754
MA0069.10.318986
MA0070.10.311646
MA0071.10.0663363
MA0072.10.823673
MA0073.14.85064e-11
MA0074.11.56982
MA0076.10.0191324
MA0077.10.289168
MA0078.11.965
MA0081.10.135744
MA0083.10.377437
MA0084.10.888928
MA0087.10.343502
MA0088.10.042022
MA0089.10
MA0090.10.0411793
MA0091.10.794118
MA0092.10.654812
MA0093.10.177315
MA0095.10
MA0098.10
MA0100.10.0866769
MA0101.10.541516
MA0103.11.33448
MA0105.10.218476
MA0106.10.141662
MA0107.12.16822
MA0108.20.192275
MA0109.10
MA0111.10.173598
MA0113.10.792641
MA0114.11.13193
MA0115.10.380305
MA0116.10.521454
MA0117.10.354763
MA0119.10.0301518
MA0122.10.370415
MA0124.10.540789
MA0125.10.477172
MA0130.10
MA0131.10.175114
MA0132.10
MA0133.10
MA0135.10.407424
MA0136.10.332458
MA0139.10.0132055
MA0140.10.0866252
MA0141.11.89676
MA0142.10.225403
MA0143.10.135052
MA0144.10.368602
MA0145.10.00907015
MA0146.11.09013e-05
MA0147.10.108806
MA0148.10.0580838
MA0149.10.0314134
MA0062.20.000890599
MA0035.20.0887515
MA0039.21.62786e-07
MA0138.20.170255
MA0002.21.69886
MA0137.20.228652
MA0104.20.0566401
MA0047.20.740462
MA0112.20.00906891
MA0065.20.381556
MA0150.10.178585
MA0151.10
MA0152.10.114512
MA0153.10.42102
MA0154.10.325568
MA0155.10.216825
MA0156.10.675652
MA0157.10.589667
MA0158.10
MA0159.10.674753
MA0160.10.214615
MA0161.10
MA0162.12.23315e-07
MA0163.10.0306181
MA0164.10.101555
MA0080.20.381431
MA0018.20.10631
MA0099.20.498573
MA0079.20
MA0102.20.938682
MA0258.10.0263373
MA0259.10.2096
MA0442.10
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