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MCL coexpression mm9:421: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000988!5.93e-37!32;CL:0002032!5.93e-37!32;CL:0000037!5.93e-37!32;CL:0000566!5.93e-37!32;CL:0000837!5.93e-37!32;CL:0000838!5.44e-36!12;CL:0000542!4.75e-33!13;CL:0000051!4.75e-33!13;CL:0000084!5.75e-33!11;CL:0000827!5.75e-33!11;CL:0000791!1.70e-27!9;CL:0000789!1.70e-27!9;CL:0002420!1.70e-27!9;CL:0002419!1.70e-27!9;CL:0000790!1.70e-27!9;CL:0002320!3.60e-27!46;CL:0000134!3.60e-27!46;CL:0002242!1.98e-26!16;CL:0000738!9.66e-25!17;CL:0002087!9.66e-25!17;CL:0000624!1.23e-24!8;CL:0000219!1.55e-22!54;CL:0002031!5.90e-22!25;CL:0000893!1.32e-18!6;CL:0002489!1.32e-18!6;CL:0000898!1.32e-18!6;CL:0000809!1.32e-18!6;CL:0000810!1.32e-18!6;CL:0000895!1.32e-18!6;CL:0000808!1.32e-18!6;CL:0000894!1.32e-18!6;CL:0000806!1.32e-18!6;CL:0000807!1.32e-18!6;CL:0000805!1.32e-18!6;CL:0002425!1.32e-18!6;CL:0002436!1.32e-18!6;CL:0002427!1.32e-18!6;CL:0002428!1.32e-18!6;CL:0002429!1.32e-18!6;CL:0002433!1.32e-18!6;CL:0002431!1.32e-18!6;CL:0002432!1.32e-18!6;CL:0000034!4.21e-15!97;CL:0000723!1.13e-11!91;CL:0000048!1.13e-11!91;CL:0000049!3.21e-10!19;CL:0000548!2.33e-08!115;CL:0000255!2.33e-08!115;CL:0002371!4.86e-08!118
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!3.60e-27!46;UBERON:0002390!2.27e-09!45;UBERON:0003061!2.27e-09!45;UBERON:0002193!1.25e-08!48;UBERON:0002405!1.25e-08!48;UBERON:0002370!1.77e-07!23;UBERON:0000974!1.77e-07!23;UBERON:0004807!1.77e-07!23;UBERON:0005058!1.77e-07!23;UBERON:0003351!1.77e-07!23;UBERON:0009113!1.77e-07!23;UBERON:0003295!1.77e-07!23;UBERON:0009722!1.77e-07!23;UBERON:0005562!1.77e-07!23;UBERON:0007690!1.77e-07!23;UBERON:0006562!4.04e-07!24;UBERON:0003408!4.04e-07!24;UBERON:0001557!4.04e-07!24;UBERON:0001042!4.04e-07!24;UBERON:0008814!4.04e-07!24;UBERON:0009145!4.04e-07!24
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.559911,0.144778,0.558894,0.572598,1.73484,0.270195,0.146885,0.361988,0.115943,0.665632,0.260789,0.340991,0.27987,0.615754,0,0.44163,0.937919,0.307533,0.278706,0.385752,1.38063,0.279154,0.568642,0.457081,0.301898,0.289597,0.620162,0.338701,0.203444,0.206597,0.531719,1.3926,0.249044,0.296456,0.0253178,0.0693463,0.715898,0.0591424,0.177517,0.952793,0.210373,1.62217,1.03977,0.0747075,0.183361,0.372907,0.228683,0.565584,0.699131,0.426383,0.323798,0.190678,0.661847,0.67813,0.28555,0.356911,0.25091,0.503803,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.132733,0.635773,0.0300638,0.709559,0.105151,0.0942652,0.756603,0.363297,2.15522,0.392419,0.155185,0.456892,0.330377,1.33467,0.602212,0.00517576,0.388352,0.0797642,0.377064,1.30447,0.873554,0.606796,0.543309,0.587829,0.057338,1.12502,0.334928,0.545856,0.373124,1.17121,0.523231,0.531465,0.645628,0.4269,0.425983,0.21005,1.20351,0.640728,0.127231,0.122746,0.925979,0.647285,0.787233,0.67478,0.880323,0.557702,0.00145901,1.07444,0.442771,0.880181,0.714636,1.03044,0.303371,0.951399,0.932468,0.501574,0.276618,0.53717,0.805419,0.59554,0.629874,0.186072,0.777296,0.296474,2.08424,0.0789988,0.167758,0.211406,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.169369,0.27407,0.0181622,0.0678237,0.66331,0.754242,0.29573,0.739975,1.56184,0.647202,0.483688,0.968294,0.862985,0.601424,0.501973,0.15582,0.417485,0.289792,0.242542,0.259556,0.567122
|tfbs_overrepresentation_jaspar=MA0003.1;0.444916,MA0004.1;0.559722,MA0006.1;0.289293,MA0007.1;0.181021,MA0009.1;0.5557,MA0014.1;0.0191544,MA0017.1;0.328722,MA0019.1;1.02123,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;2.13813,MA0029.1;0.496599,MA0030.1;0.502474,MA0031.1;0.470779,MA0038.1;1.48029,MA0040.1;0.567108,MA0041.1;0.140298,MA0042.1;0.131965,MA0043.1;0.644695,MA0046.1;0.58854,MA0048.1;0.166935,MA0050.1;0.626793,MA0051.1;0.309072,MA0052.1;0.574473,MA0055.1;0.368697,MA0056.1;0,MA0057.1;0.0539481,MA0058.1;0.127732,MA0059.1;0.13543,MA0060.1;0.713774,MA0061.1;4.26538,MA0063.1;0,MA0066.1;0.795934,MA0067.1;0.879099,MA0068.1;1.12142,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.219128,MA0072.1;0.558195,MA0073.1;3.08232,MA0074.1;0.264633,MA0076.1;1.74277,MA0077.1;0.538513,MA0078.1;0.336143,MA0081.1;0.458627,MA0083.1;0.643958,MA0084.1;1.1979,MA0087.1;0.604077,MA0088.1;0.185982,MA0089.1;0,MA0090.1;0.167748,MA0091.1;0.582275,MA0092.1;0.969912,MA0093.1;1.08707,MA0095.1;0,MA0098.1;0,MA0100.1;0.255651,MA0101.1;4.23323,MA0103.1;0.106139,MA0105.1;3.54015,MA0106.1;0.342589,MA0107.1;4.42975,MA0108.2;0.413973,MA0109.1;0,MA0111.1;0.525581,MA0113.1;0.319332,MA0114.1;0.215695,MA0115.1;0.647296,MA0116.1;0.288992,MA0117.1;0.617392,MA0119.1;0.859235,MA0122.1;0.635764,MA0124.1;0.828115,MA0125.1;0.757653,MA0130.1;0,MA0131.1;0.390422,MA0132.1;0,MA0133.1;0,MA0135.1;0.67864,MA0136.1;0.280269,MA0139.1;0.601065,MA0140.1;0.255562,MA0141.1;0.11774,MA0142.1;0.457961,MA0143.1;0.332773,MA0144.1;0.219807,MA0145.1;0.208013,MA0146.1;0.129919,MA0147.1;0.873219,MA0148.1;1.74375,MA0149.1;0.144679,MA0062.2;0.760681,MA0035.2;0.259203,MA0039.2;0.226711,MA0138.2;0.383644,MA0002.2;2.36117,MA0137.2;0.116005,MA0104.2;0.662527,MA0047.2;3.12495,MA0112.2;2.33029,MA0065.2;0.850684,MA0150.1;1.02262,MA0151.1;0,MA0152.1;0.301303,MA0153.1;0.694211,MA0154.1;0.548533,MA0155.1;0.430598,MA0156.1;0.110475,MA0157.1;0.429861,MA0158.1;0,MA0159.1;0.250417,MA0160.1;0.592791,MA0161.1;0,MA0162.1;0.0894944,MA0163.1;0.0118116,MA0164.1;0.280556,MA0080.2;0.688488,MA0018.2;0.288261,MA0099.2;0.986085,MA0079.2;0.000656299,MA0102.2;1.24942,MA0258.1;1.64291,MA0259.1;0.482458,MA0442.1;0
}}

Latest revision as of 15:16, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80158316..80158334,+p@chr10:80158316..80158334
+
Mm9::chr11:21138176..21138179,-p@chr11:21138176..21138179
-
Mm9::chr15:80542424..80542435,-p@chr15:80542424..80542435
-
Mm9::chr16:75907266..75907275,+p@chr16:75907266..75907275
+
Mm9::chr16:84583763..84583779,-p@chr16:84583763..84583779
-
Mm9::chr16:92824084..92824098,+p@chr16:92824084..92824098
+
Mm9::chr17:29530613..29530620,-p@chr17:29530613..29530620
-
Mm9::chr17:29530790..29530796,+p@chr17:29530790..29530796
+
Mm9::chr17:29530804..29530833,+p@chr17:29530804..29530833
+
Mm9::chr18:66630496..66630501,+p@chr18:66630496..66630501
+
Mm9::chr19:12869451..12869490,+p@chr19:12869451..12869490
+
Mm9::chr1:132918226..132918229,-p@chr1:132918226..132918229
-
Mm9::chr1:97564410..97564422,+p@chr1:97564410..97564422
+
Mm9::chr5:22892703..22892742,-p@chr5:22892703..22892742
-
Mm9::chr6:31076337..31076341,-p@chr6:31076337..31076341
-
Mm9::chr6:83267246..83267258,+p@chr6:83267246..83267258
+
Mm9::chr8:96889748..96889760,+p@chr8:96889748..96889760
+
Mm9::chr8:96889794..96889800,+p@chr8:96889794..96889800
+


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 cell5.93e-3732
hematopoietic oligopotent progenitor cell5.93e-3732
hematopoietic stem cell5.93e-3732
angioblastic mesenchymal cell5.93e-3732
hematopoietic multipotent progenitor cell5.93e-3732
lymphoid lineage restricted progenitor cell5.44e-3612
lymphocyte4.75e-3313
common lymphoid progenitor4.75e-3313
T cell5.75e-3311
pro-T cell5.75e-3311
mature alpha-beta T cell1.70e-279
alpha-beta T cell1.70e-279
immature T cell1.70e-279
mature T cell1.70e-279
immature alpha-beta T cell1.70e-279
connective tissue cell3.60e-2746
mesenchymal cell3.60e-2746
nucleate cell1.98e-2616
leukocyte9.66e-2517
nongranular leukocyte9.66e-2517
CD4-positive, alpha-beta T cell1.23e-248
motile cell1.55e-2254
hematopoietic lineage restricted progenitor cell5.90e-2225
thymocyte1.32e-186
double negative thymocyte1.32e-186
naive T cell1.32e-186
double-positive, alpha-beta thymocyte1.32e-186
CD4-positive, alpha-beta thymocyte1.32e-186
naive thymus-derived CD4-positive, alpha-beta T cell1.32e-186
DN4 thymocyte1.32e-186
DN1 thymic pro-T cell1.32e-186
DN2 thymocyte1.32e-186
DN3 thymocyte1.32e-186
immature single positive thymocyte1.32e-186
early T lineage precursor1.32e-186
mature CD4 single-positive thymocyte1.32e-186
resting double-positive thymocyte1.32e-186
double-positive blast1.32e-186
CD69-positive double-positive thymocyte1.32e-186
CD69-positive, CD4-positive single-positive thymocyte1.32e-186
CD4-positive, CD8-intermediate double-positive thymocyte1.32e-186
CD24-positive, CD4 single-positive thymocyte1.32e-186
stem cell4.21e-1597
somatic stem cell1.13e-1191
multi fate stem cell1.13e-1191
common myeloid progenitor3.21e-1019
animal cell2.33e-08115
eukaryotic cell2.33e-08115
somatic cell4.86e-08118


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)
MA0003.10.444916
MA0004.10.559722
MA0006.10.289293
MA0007.10.181021
MA0009.10.5557
MA0014.10.0191544
MA0017.10.328722
MA0019.11.02123
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.12.13813
MA0029.10.496599
MA0030.10.502474
MA0031.10.470779
MA0038.11.48029
MA0040.10.567108
MA0041.10.140298
MA0042.10.131965
MA0043.10.644695
MA0046.10.58854
MA0048.10.166935
MA0050.10.626793
MA0051.10.309072
MA0052.10.574473
MA0055.10.368697
MA0056.10
MA0057.10.0539481
MA0058.10.127732
MA0059.10.13543
MA0060.10.713774
MA0061.14.26538
MA0063.10
MA0066.10.795934
MA0067.10.879099
MA0068.11.12142
MA0069.10.574784
MA0070.10.565924
MA0071.10.219128
MA0072.10.558195
MA0073.13.08232
MA0074.10.264633
MA0076.11.74277
MA0077.10.538513
MA0078.10.336143
MA0081.10.458627
MA0083.10.643958
MA0084.11.1979
MA0087.10.604077
MA0088.10.185982
MA0089.10
MA0090.10.167748
MA0091.10.582275
MA0092.10.969912
MA0093.11.08707
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.14.23323
MA0103.10.106139
MA0105.13.54015
MA0106.10.342589
MA0107.14.42975
MA0108.20.413973
MA0109.10
MA0111.10.525581
MA0113.10.319332
MA0114.10.215695
MA0115.10.647296
MA0116.10.288992
MA0117.10.617392
MA0119.10.859235
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.10.67864
MA0136.10.280269
MA0139.10.601065
MA0140.10.255562
MA0141.10.11774
MA0142.10.457961
MA0143.10.332773
MA0144.10.219807
MA0145.10.208013
MA0146.10.129919
MA0147.10.873219
MA0148.11.74375
MA0149.10.144679
MA0062.20.760681
MA0035.20.259203
MA0039.20.226711
MA0138.20.383644
MA0002.22.36117
MA0137.20.116005
MA0104.20.662527
MA0047.23.12495
MA0112.22.33029
MA0065.20.850684
MA0150.11.02262
MA0151.10
MA0152.10.301303
MA0153.10.694211
MA0154.10.548533
MA0155.10.430598
MA0156.10.110475
MA0157.10.429861
MA0158.10
MA0159.10.250417
MA0160.10.592791
MA0161.10
MA0162.10.0894944
MA0163.10.0118116
MA0164.10.280556
MA0080.20.688488
MA0018.20.288261
MA0099.20.986085
MA0079.20.000656299
MA0102.21.24942
MA0258.11.64291
MA0259.10.482458
MA0442.10
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