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MCL coexpression mm9:855: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0003350!1.94e-11!9;UBERON:0004808!1.94e-11!9;UBERON:0001277!1.94e-11!9;UBERON:0000485!6.14e-11!11;UBERON:0002384!1.66e-09!46;UBERON:0000490!2.97e-08!66;UBERON:0001242!3.62e-07!13;UBERON:0000060!3.62e-07!13;UBERON:0001262!3.62e-07!13;UBERON:0004786!3.62e-07!13;UBERON:0003929!8.38e-07!55
|ontology_enrichment_uberon=UBERON:0003350!1.94e-11!9;UBERON:0004808!1.94e-11!9;UBERON:0001277!1.94e-11!9;UBERON:0000485!6.14e-11!11;UBERON:0002384!1.66e-09!46;UBERON:0000490!2.97e-08!66;UBERON:0001242!3.62e-07!13;UBERON:0000060!3.62e-07!13;UBERON:0001262!3.62e-07!13;UBERON:0004786!3.62e-07!13;UBERON:0003929!8.38e-07!55
|tfbs_overrepresentation_for_novel_motifs=1.01838,0.534222,0.96259,1.10802,0.260188,0.448401,0.538088,0.515265,1.02512,1.0625,0.494602,0.526159,0.173454,0.550255,0.275867,0,0.742571,0.252772,0.483643,0.29826,0.332107,0.223663,0.549359,0.258745,0.374936,0.577606,0.909128,0.469052,0.303071,0.757024,0.455168,0.843667,0.699026,0.425071,0.276324,0.0711618,0.678971,0.522578,0.221921,1.08217,0.256422,0.460258,0.204736,0.27776,0.209497,1.90392,0.662995,0.484612,0.170971,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.145699,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.922232,0.178433,0.872563,1.03623,1.98853,0.131016,0.42492,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.501608,0.920903,0.789543,0.540827,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.62322,0.202284,0.1711,0.859272,1.59353,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,1.16334,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,1.24884,1.21576,0.254749,0.603195,0.437894,0.743872,0.670977,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,1.39992,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,1.33415,0.381863,4.11974,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,1.01313,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,0.558175
|tfbs_overrepresentation_for_novel_motifs=1.01838,0.534222,0.96259,1.10802,0.260188,0.448401,0.538088,0.515265,1.02512,1.0625,0.494602,0.526159,0.173454,0.550255,0.275867,0,0.742571,0.252772,0.483643,0.29826,0.332107,0.223663,0.549359,0.258745,0.374936,0.577606,0.909128,0.469052,0.303071,0.757024,0.455168,0.843667,0.699026,0.425071,0.276324,0.0711618,0.678971,0.522578,0.221921,1.08217,0.256422,0.460258,0.204736,0.27776,0.209497,1.90392,0.662995,0.484612,0.170971,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.145699,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.922232,0.178433,0.872563,1.03623,1.98853,0.131016,0.42492,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.501608,0.920903,0.789543,0.540827,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.62322,0.202284,0.1711,0.859272,1.59353,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,1.16334,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,1.24884,1.21576,0.254749,0.603195,0.437894,0.743872,0.670977,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,1.39992,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,1.33415,0.381863,4.11974,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,1.01313,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,0.558175
|tfbs_overrepresentation_jaspar=MA0003.1;1.45843,MA0004.1;0.434673,MA0006.1;2.93377,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;0.829081,MA0017.1;0.296816,MA0019.1;0.688051,MA0024.1;0.826339,MA0025.1;1.10341,MA0027.1;2.51754,MA0028.1;0.769859,MA0029.1;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.947733,MA0042.1;0.919611,MA0043.1;2.21848,MA0046.1;0.906029,MA0048.1;0.685543,MA0050.1;0.472794,MA0051.1;0.586414,MA0052.1;0.890676,MA0055.1;0.117901,MA0056.1;0,MA0057.1;0.31126,MA0058.1;0.341628,MA0059.1;0.931383,MA0060.1;1.08928,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;1.18945,MA0072.1;0.872842,MA0073.1;0.214367,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;0.49616,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;0.307078,MA0105.1;0.41549,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;1.55504,MA0140.1;0.519484,MA0141.1;0.325895,MA0142.1;0.761136,MA0143.1;0.615203,MA0144.1;0.225588,MA0145.1;0.246409,MA0146.1;1.31232,MA0147.1;1.24068,MA0148.1;0.450593,MA0149.1;0.367458,MA0062.2;1.96779,MA0035.2;0.524137,MA0039.2;2.04793,MA0138.2;0.675599,MA0002.2;0.172399,MA0137.2;0.32312,MA0104.2;1.64215,MA0047.2;0.576767,MA0112.2;0.90045,MA0065.2;0.0704227,MA0150.1;0.419883,MA0151.1;0,MA0152.1;0.576873,MA0153.1;1.01988,MA0154.1;0.330759,MA0155.1;0.275377,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;0.688775,MA0160.1;0.453546,MA0161.1;0,MA0162.1;3.47629,MA0163.1;0.408151,MA0164.1;0.551114,MA0080.2;0.302064,MA0018.2;3.46244,MA0099.2;0.669311,MA0079.2;2.91632,MA0102.2;1.59466,MA0258.1;0.210437,MA0259.1;0.643936,MA0442.1;0
}}
}}

Revision as of 12:25, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:120911138..120911151,-p@chr10:120911138..120911151
-
Mm9::chr10:41996698..41996706,+p@chr10:41996698..41996706
+
Mm9::chr10:41997406..41997420,-p@chr10:41997406..41997420
-
Mm9::chr15:79518426..79518443,+p@chr15:79518426..79518443
+
Mm9::chr18:5334307..5334329,-p@chr18:5334307..5334329
-
Mm9::chr8:26708166..26708177,+p@chr8:26708166..26708177
+
Mm9::chr8:75016914..75016923,+p3@ENSMUST00000167312
p3@uc009mgf.1
Mm9::chr9:37156125..37156134,+p@chr9:37156125..37156134
+


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>

Cell Type
Ontology termp-valuen
hematopoietic cell5.39e-1532
hematopoietic oligopotent progenitor cell5.39e-1532
hematopoietic stem cell5.39e-1532
angioblastic mesenchymal cell5.39e-1532
hematopoietic multipotent progenitor cell5.39e-1532
lymphoid lineage restricted progenitor cell6.03e-1512
T cell9.09e-1411
pro-T cell9.09e-1411
lymphocyte1.68e-1313
common lymphoid progenitor1.68e-1313
mature alpha-beta T cell2.53e-129
alpha-beta T cell2.53e-129
immature T cell2.53e-129
mature T cell2.53e-129
immature alpha-beta T cell2.53e-129
nucleate cell2.88e-1216
hematopoietic lineage restricted progenitor cell1.10e-1125
intestinal epithelial cell1.94e-119
epithelial cell of alimentary canal1.94e-119
leukocyte4.52e-1117
nongranular leukocyte4.52e-1117
CD4-positive, alpha-beta T cell4.71e-118
connective tissue cell1.66e-0946
mesenchymal cell1.66e-0946
stem cell1.31e-0897
thymocyte2.02e-086
double negative thymocyte2.02e-086
naive T cell2.02e-086
double-positive, alpha-beta thymocyte2.02e-086
CD4-positive, alpha-beta thymocyte2.02e-086
naive thymus-derived CD4-positive, alpha-beta T cell2.02e-086
DN4 thymocyte2.02e-086
DN1 thymic pro-T cell2.02e-086
DN2 thymocyte2.02e-086
DN3 thymocyte2.02e-086
immature single positive thymocyte2.02e-086
early T lineage precursor2.02e-086
mature CD4 single-positive thymocyte2.02e-086
resting double-positive thymocyte2.02e-086
double-positive blast2.02e-086
CD69-positive double-positive thymocyte2.02e-086
CD69-positive, CD4-positive single-positive thymocyte2.02e-086
CD4-positive, CD8-intermediate double-positive thymocyte2.02e-086
CD24-positive, CD4 single-positive thymocyte2.02e-086
somatic cell2.10e-08118
brush border epithelial cell6.55e-086
gut absorptive cell6.55e-086
absorptive cell6.55e-086
enterocyte6.55e-086
somatic stem cell1.45e-0791
multi fate stem cell1.45e-0791
motile cell4.14e-0754
animal cell9.28e-07115
eukaryotic cell9.28e-07115


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)
MA0003.11.45843
MA0004.10.434673
MA0006.12.93377
MA0007.10.419994
MA0009.10.870101
MA0014.10.829081
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.769859
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.947733
MA0042.10.919611
MA0043.12.21848
MA0046.10.906029
MA0048.10.685543
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.10.117901
MA0056.10
MA0057.10.31126
MA0058.10.341628
MA0059.10.931383
MA0060.11.08928
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.11.18945
MA0072.10.872842
MA0073.10.214367
MA0074.10.531046
MA0076.10.845594
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.49616
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.307078
MA0105.10.41549
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
MA0139.11.55504
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.246409
MA0146.11.31232
MA0147.11.24068
MA0148.10.450593
MA0149.10.367458
MA0062.21.96779
MA0035.20.524137
MA0039.22.04793
MA0138.20.675599
MA0002.20.172399
MA0137.20.32312
MA0104.21.64215
MA0047.20.576767
MA0112.20.90045
MA0065.20.0704227
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.330759
MA0155.10.275377
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.688775
MA0160.10.453546
MA0161.10
MA0162.13.47629
MA0163.10.408151
MA0164.10.551114
MA0080.20.302064
MA0018.23.46244
MA0099.20.669311
MA0079.22.91632
MA0102.21.59466
MA0258.10.210437
MA0259.10.643936
MA0442.10
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