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MCL coexpression mm9:928: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004177!1.68e-29!29;UBERON:0005057!1.68e-29!29;UBERON:0002370!2.18e-29!23;UBERON:0000974!2.18e-29!23;UBERON:0004807!2.18e-29!23;UBERON:0005058!2.18e-29!23;UBERON:0003351!2.18e-29!23;UBERON:0009113!2.18e-29!23;UBERON:0003295!2.18e-29!23;UBERON:0009722!2.18e-29!23;UBERON:0005562!2.18e-29!23;UBERON:0007690!2.18e-29!23;UBERON:0006562!6.49e-28!24;UBERON:0003408!6.49e-28!24;UBERON:0001557!6.49e-28!24;UBERON:0001042!6.49e-28!24;UBERON:0008814!6.49e-28!24;UBERON:0009145!6.49e-28!24;UBERON:0000065!2.81e-24!41;UBERON:0000072!3.75e-24!27;UBERON:0002193!4.87e-24!48;UBERON:0002405!4.87e-24!48;UBERON:0001004!1.60e-23!42;UBERON:0000077!2.76e-23!35;UBERON:0002390!3.95e-22!45;UBERON:0003061!3.95e-22!45;UBERON:0000063!2.70e-17!35;UBERON:0007811!1.18e-16!36;UBERON:0001041!4.95e-13!80;UBERON:0000153!5.08e-13!43;UBERON:0005911!1.19e-12!69;UBERON:0003929!4.37e-10!55;UBERON:0002368!1.04e-09!60;UBERON:0003081!1.18e-09!87;UBERON:0002530!1.61e-08!65;UBERON:0001007!4.99e-08!116;UBERON:0001555!4.99e-08!116;UBERON:0007026!4.99e-08!116;UBERON:0004119!9.29e-08!118;UBERON:0000925!9.29e-08!118;UBERON:0006595!9.29e-08!118;UBERON:0004921!1.35e-07!114;UBERON:0000490!1.72e-07!66;UBERON:0000949!3.79e-07!72;UBERON:0000926!6.46e-07!120;UBERON:0004120!6.46e-07!120;UBERON:0006603!6.46e-07!120
|ontology_enrichment_uberon=UBERON:0004177!1.68e-29!29;UBERON:0005057!1.68e-29!29;UBERON:0002370!2.18e-29!23;UBERON:0000974!2.18e-29!23;UBERON:0004807!2.18e-29!23;UBERON:0005058!2.18e-29!23;UBERON:0003351!2.18e-29!23;UBERON:0009113!2.18e-29!23;UBERON:0003295!2.18e-29!23;UBERON:0009722!2.18e-29!23;UBERON:0005562!2.18e-29!23;UBERON:0007690!2.18e-29!23;UBERON:0006562!6.49e-28!24;UBERON:0003408!6.49e-28!24;UBERON:0001557!6.49e-28!24;UBERON:0001042!6.49e-28!24;UBERON:0008814!6.49e-28!24;UBERON:0009145!6.49e-28!24;UBERON:0000065!2.81e-24!41;UBERON:0000072!3.75e-24!27;UBERON:0002193!4.87e-24!48;UBERON:0002405!4.87e-24!48;UBERON:0001004!1.60e-23!42;UBERON:0000077!2.76e-23!35;UBERON:0002390!3.95e-22!45;UBERON:0003061!3.95e-22!45;UBERON:0000063!2.70e-17!35;UBERON:0007811!1.18e-16!36;UBERON:0001041!4.95e-13!80;UBERON:0000153!5.08e-13!43;UBERON:0005911!1.19e-12!69;UBERON:0003929!4.37e-10!55;UBERON:0002368!1.04e-09!60;UBERON:0003081!1.18e-09!87;UBERON:0002530!1.61e-08!65;UBERON:0001007!4.99e-08!116;UBERON:0001555!4.99e-08!116;UBERON:0007026!4.99e-08!116;UBERON:0004119!9.29e-08!118;UBERON:0000925!9.29e-08!118;UBERON:0006595!9.29e-08!118;UBERON:0004921!1.35e-07!114;UBERON:0000490!1.72e-07!66;UBERON:0000949!3.79e-07!72;UBERON:0000926!6.46e-07!120;UBERON:0004120!6.46e-07!120;UBERON:0006603!6.46e-07!120
|tfbs_overrepresentation_for_novel_motifs=1.01838,0.0293268,0.367606,0.434198,1.32803,0.448401,0.538088,0.173246,0.181564,0.170907,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,0.252772,0.938682,0.29826,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,0.466037,0.469052,0.303071,0.118137,0.455168,0.843667,0.250677,0.136998,0.276324,0.0711618,0.242032,0.522578,0.631914,0.195877,0.712303,0.460258,0.204736,0.27776,0.983404,0.423266,0.662995,0.484612,0.386968,0.825035,0.725127,0.604356,0.362495,0.985264,1.00271,1.37128,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.0665967,1.03623,0.140213,1.32088,0.42492,0.651651,0.806481,0.336166,1.01677,0.759925,0.612313,0.501608,0.920903,0.108172,0.123242,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.733735,0.62322,0.585369,0.1711,0.859272,0.663249,0.332938,1.95318,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.708441,0.0359654,0.437894,0.743872,0.670977,1.04163,0.692953,1.41785,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.381863,0.0553085,0.986833,0.207643,0.569994,1.06851,1.47241,0.782826,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,1.38244,0.240994,0.524587,0.0628627
|tfbs_overrepresentation_for_novel_motifs=1.01838,0.0293268,0.367606,0.434198,1.32803,0.448401,0.538088,0.173246,0.181564,0.170907,0.494602,0.526159,0.173454,0.550255,0.756943,0,0.742571,0.252772,0.938682,0.29826,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,0.466037,0.469052,0.303071,0.118137,0.455168,0.843667,0.250677,0.136998,0.276324,0.0711618,0.242032,0.522578,0.631914,0.195877,0.712303,0.460258,0.204736,0.27776,0.983404,0.423266,0.662995,0.484612,0.386968,0.825035,0.725127,0.604356,0.362495,0.985264,1.00271,1.37128,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.0665967,1.03623,0.140213,1.32088,0.42492,0.651651,0.806481,0.336166,1.01677,0.759925,0.612313,0.501608,0.920903,0.108172,0.123242,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.733735,0.62322,0.585369,0.1711,0.859272,0.663249,0.332938,1.95318,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.708441,0.0359654,0.437894,0.743872,0.670977,1.04163,0.692953,1.41785,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.381863,0.0553085,0.986833,0.207643,0.569994,1.06851,1.47241,0.782826,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,1.38244,0.240994,0.524587,0.0628627
|tfbs_overrepresentation_jaspar=MA0003.1;0.00271136,MA0004.1;0.434673,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;3.34223,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;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;3.38116,MA0041.1;0.360875,MA0042.1;0.348174,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;0.102483,MA0050.1;1.19121,MA0051.1;1.43259,MA0052.1;0.890676,MA0055.1;0.117901,MA0056.1;0,MA0057.1;0.0935008,MA0058.1;0.341628,MA0059.1;0.353484,MA0060.1;0.197678,MA0061.1;0.638933,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;0.657844,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;0.744556,MA0074.1;0.531046,MA0076.1;0.315013,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;0.229377,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;0.133231,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;0.747001,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;0.640537,MA0145.1;0.246409,MA0146.1;0.0169049,MA0147.1;0.666991,MA0148.1;0.450593,MA0149.1;0.367458,MA0062.2;0.137653,MA0035.2;0.524137,MA0039.2;0.0706842,MA0138.2;0.675599,MA0002.2;0.988033,MA0137.2;0.32312,MA0104.2;0.54394,MA0047.2;0.576767,MA0112.2;0.2464,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;0.0804339,MA0156.1;0.843735,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;0.816435,MA0018.2;0.560731,MA0099.2;0.669311,MA0079.2;0.00265486,MA0102.2;1.59466,MA0258.1;0.60477,MA0259.1;0.227035,MA0442.1;0
}}
}}

Revision as of 12:32, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:108367868..108367879,+p1@ENSMUST00000144575
Mm9::chr17:34342501..34342519,+p@chr17:34342501..34342519
+
Mm9::chr1:69730865..69730887,-p@chr1:69730865..69730887
-
Mm9::chr2:139867858..139867868,-p5@Tasp1
Mm9::chr2:139867875..139867906,-p2@Tasp1
Mm9::chr2:139867908..139867928,-p4@Tasp1
Mm9::chr8:73332330..73332373,+p1@Il12rb1
Mm9::chr9:114405689..114405699,-p2@Ccr4


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
mature alpha-beta T cell6.19e-159
alpha-beta T cell6.19e-159
immature T cell6.19e-159
mature T cell6.19e-159
immature alpha-beta T cell6.19e-159
CD4-positive, alpha-beta T cell2.26e-138
T cell7.40e-1211
pro-T cell7.40e-1211
lymphoid lineage restricted progenitor cell1.05e-1012
thymocyte6.55e-106
double negative thymocyte6.55e-106
naive T cell6.55e-106
double-positive, alpha-beta thymocyte6.55e-106
CD4-positive, alpha-beta thymocyte6.55e-106
naive thymus-derived CD4-positive, alpha-beta T cell6.55e-106
DN4 thymocyte6.55e-106
DN1 thymic pro-T cell6.55e-106
DN2 thymocyte6.55e-106
DN3 thymocyte6.55e-106
immature single positive thymocyte6.55e-106
early T lineage precursor6.55e-106
mature CD4 single-positive thymocyte6.55e-106
resting double-positive thymocyte6.55e-106
double-positive blast6.55e-106
CD69-positive double-positive thymocyte6.55e-106
CD69-positive, CD4-positive single-positive thymocyte6.55e-106
CD4-positive, CD8-intermediate double-positive thymocyte6.55e-106
CD24-positive, CD4 single-positive thymocyte6.55e-106
lymphocyte9.86e-1013
common lymphoid progenitor9.86e-1013
hematopoietic lineage restricted progenitor cell8.22e-0825
nucleate cell1.49e-0716
leukocyte5.34e-0717
nongranular leukocyte5.34e-0717

Uber Anatomy
Ontology termp-valuen
hemopoietic organ1.68e-2929
immune organ1.68e-2929
thymus2.18e-2923
neck2.18e-2923
respiratory system epithelium2.18e-2923
hemolymphoid system gland2.18e-2923
pharyngeal epithelium2.18e-2923
thymic region2.18e-2923
pharyngeal gland2.18e-2923
entire pharyngeal arch endoderm2.18e-2923
thymus primordium2.18e-2923
early pharyngeal endoderm2.18e-2923
pharynx6.49e-2824
gland of gut6.49e-2824
upper respiratory tract6.49e-2824
chordate pharynx6.49e-2824
pharyngeal arch system6.49e-2824
pharyngeal region of foregut6.49e-2824
respiratory tract2.81e-2441
segment of respiratory tract3.75e-2427
hemolymphoid system4.87e-2448
immune system4.87e-2448
respiratory system1.60e-2342
mixed endoderm/mesoderm-derived structure2.76e-2335
hematopoietic system3.95e-2245
blood island3.95e-2245
organ segment2.70e-1735
craniocervical region1.18e-1636
foregut4.95e-1380
anterior region of body5.08e-1343
endo-epithelium1.19e-1269
gut epithelium4.37e-1055
endocrine gland1.04e-0960
lateral plate mesoderm1.18e-0987
gland1.61e-0865
digestive system4.99e-08116
digestive tract4.99e-08116
primitive gut4.99e-08116
endoderm-derived structure9.29e-08118
endoderm9.29e-08118
presumptive endoderm9.29e-08118
subdivision of digestive tract1.35e-07114
unilaminar epithelium1.72e-0766
endocrine system3.79e-0772
mesoderm6.46e-07120
mesoderm-derived structure6.46e-07120
presumptive mesoderm6.46e-07120


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
MA0009.13.34223
MA0014.10.012738
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
MA0040.13.38116
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.10.102483
MA0050.11.19121
MA0051.11.43259
MA0052.10.890676
MA0055.10.117901
MA0056.10
MA0057.10.0935008
MA0058.10.341628
MA0059.10.353484
MA0060.10.197678
MA0061.10.638933
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.657844
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.744556
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.10.61926
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
MA0105.10.133231
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.10.222763
MA0115.10.969632
MA0116.10.747001
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
MA0144.10.640537
MA0145.10.246409
MA0146.10.0169049
MA0147.10.666991
MA0148.10.450593
MA0149.10.367458
MA0062.20.137653
MA0035.20.524137
MA0039.20.0706842
MA0138.20.675599
MA0002.20.988033
MA0137.20.32312
MA0104.20.54394
MA0047.20.576767
MA0112.20.2464
MA0065.20.0704227
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.330759
MA0155.10.0804339
MA0156.10.843735
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.10.453546
MA0161.10
MA0162.10.0211019
MA0163.10.0186439
MA0164.10.551114
MA0080.20.816435
MA0018.20.560731
MA0099.20.669311
MA0079.20.00265486
MA0102.21.59466
MA0258.10.60477
MA0259.10.227035
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:928&oldid=2574323"