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MCL coexpression mm9:152: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002048!1.09e-11!14;UBERON:0000117!1.09e-11!14;UBERON:0000171!1.09e-11!14;UBERON:0000170!1.09e-11!14;UBERON:0005597!1.09e-11!14;UBERON:0000118!1.09e-11!14;UBERON:0005153!4.88e-09!17;UBERON:0005178!4.88e-09!17;UBERON:0005181!4.88e-09!17;UBERON:0002224!4.88e-09!17;UBERON:0000915!4.88e-09!17;UBERON:0008947!4.88e-09!17;UBERON:0003258!4.88e-09!17;UBERON:0005157!3.31e-07!20
|ontology_enrichment_uberon=UBERON:0002048!1.09e-11!14;UBERON:0000117!1.09e-11!14;UBERON:0000171!1.09e-11!14;UBERON:0000170!1.09e-11!14;UBERON:0005597!1.09e-11!14;UBERON:0000118!1.09e-11!14;UBERON:0005153!4.88e-09!17;UBERON:0005178!4.88e-09!17;UBERON:0005181!4.88e-09!17;UBERON:0002224!4.88e-09!17;UBERON:0000915!4.88e-09!17;UBERON:0008947!4.88e-09!17;UBERON:0003258!4.88e-09!17;UBERON:0005157!3.31e-07!20
|tfbs_overrepresentation_for_novel_motifs=0.0701784,0.0919027,0.053304,1.56142,2.46096,1.28261,0.219411,1.51797,0.551883,0.00106125,0.062292,0.965331,0.0117849,0.0949355,0.591428,0,0.0766988,0.122165,0.201562,0.116436,1.18219,0.417873,0.0215906,0.50579,1.16758,0.113829,0.496871,0.137387,0.0593516,0.261982,0.255996,0.12133,0.118645,0.275466,0.0143704,0.0288438,0.00162569,0.0170459,0.483092,0.000429517,1.14361,0.0460424,0.421855,0.422858,0.0221405,0.202752,0.184444,0.0117641,0.635434,0.229414,0.0700706,0.134089,0.159668,0.200094,0.21096,0.0996603,0.57957,0.188025,1.1288,0.0227003,0.111672,0.0355038,0.811475,0.0659682,0.0252596,0.985079,0.303342,0.584739,0.109475,0.459985,0.00194371,1.09842,4.27959e-05,1.22399,0.00120846,0.00272597,1.69427,2.02611,0.103709,0.473138,0.184467,0.0836129,0.327843,0.0493643,0.162119,7.18159e-10,0.00620377,0.0758612,0.188998,0.729455,0.355057,0.164931,0.127706,0.37574,0.00412757,1.37732,0.15904,0.805687,0.0492032,0.04369,6.16519,0.384555,0.189476,0.0702909,0.0699006,0.00899714,0.0938788,0.302661,0.00167702,0.0350968,0.276322,0.190551,0.179636,0.0649637,0.360432,0.486529,3.91782e-05,0.226427,0.563282,0.768984,0.236036,0.466304,0.115147,0.694003,0.402541,0.105399,1.04906,0.124312,0.302247,0.252105,0.530179,0.0971696,0.281191,0.264928,0.377064,0.174418,0.310057,0.461958,0.339552,1.07546,0.700549,0.306751,0.295308,0.794301,0.0675277,0.4594,1.12855,1.03741,1.71847,0.0317632,0.0465673,3.39239e-08,1.1026,0.109522,0.263598,0.25399,0.577643,0.461513,2.00362,0.0247496,1.63985,0.486744,0.105604,0.0201379,0.0663344,0.103256,1.01185,0.645077,0.0563096
|tfbs_overrepresentation_for_novel_motifs=0.0701784,0.0919027,0.053304,1.56142,2.46096,1.28261,0.219411,1.51797,0.551883,0.00106125,0.062292,0.965331,0.0117849,0.0949355,0.591428,0,0.0766988,0.122165,0.201562,0.116436,1.18219,0.417873,0.0215906,0.50579,1.16758,0.113829,0.496871,0.137387,0.0593516,0.261982,0.255996,0.12133,0.118645,0.275466,0.0143704,0.0288438,0.00162569,0.0170459,0.483092,0.000429517,1.14361,0.0460424,0.421855,0.422858,0.0221405,0.202752,0.184444,0.0117641,0.635434,0.229414,0.0700706,0.134089,0.159668,0.200094,0.21096,0.0996603,0.57957,0.188025,1.1288,0.0227003,0.111672,0.0355038,0.811475,0.0659682,0.0252596,0.985079,0.303342,0.584739,0.109475,0.459985,0.00194371,1.09842,4.27959e-05,1.22399,0.00120846,0.00272597,1.69427,2.02611,0.103709,0.473138,0.184467,0.0836129,0.327843,0.0493643,0.162119,7.18159e-10,0.00620377,0.0758612,0.188998,0.729455,0.355057,0.164931,0.127706,0.37574,0.00412757,1.37732,0.15904,0.805687,0.0492032,0.04369,6.16519,0.384555,0.189476,0.0702909,0.0699006,0.00899714,0.0938788,0.302661,0.00167702,0.0350968,0.276322,0.190551,0.179636,0.0649637,0.360432,0.486529,3.91782e-05,0.226427,0.563282,0.768984,0.236036,0.466304,0.115147,0.694003,0.402541,0.105399,1.04906,0.124312,0.302247,0.252105,0.530179,0.0971696,0.281191,0.264928,0.377064,0.174418,0.310057,0.461958,0.339552,1.07546,0.700549,0.306751,0.295308,0.794301,0.0675277,0.4594,1.12855,1.03741,1.71847,0.0317632,0.0465673,3.39239e-08,1.1026,0.109522,0.263598,0.25399,0.577643,0.461513,2.00362,0.0247496,1.63985,0.486744,0.105604,0.0201379,0.0663344,0.103256,1.01185,0.645077,0.0563096
|tfbs_overrepresentation_jaspar=MA0003.1;2.22798e-10,MA0004.1;0.0358327,MA0006.1;0.0132108,MA0007.1;0.197631,MA0009.1;0.829831,MA0014.1;5.71259e-07,MA0017.1;0.0203775,MA0019.1;0.0570687,MA0024.1;0.11295,MA0025.1;0.278029,MA0027.1;1.56266,MA0028.1;0.0157618,MA0029.1;0.102863,MA0030.1;2.30894,MA0031.1;2.12736,MA0038.1;0.113773,MA0040.1;0.141215,MA0041.1;0.223858,MA0042.1;0.739598,MA0043.1;0.188871,MA0046.1;0.153843,MA0048.1;0.0452046,MA0050.1;0.141333,MA0051.1;0.120308,MA0052.1;0.145506,MA0055.1;1.98658,MA0056.1;0,MA0057.1;0.031777,MA0058.1;0.0112504,MA0059.1;0.108065,MA0060.1;0.0919731,MA0061.1;0.352146,MA0063.1;0,MA0066.1;0.0248976,MA0067.1;0.359458,MA0068.1;0.643288,MA0069.1;0.447014,MA0070.1;0.14053,MA0071.1;0.140459,MA0072.1;0.422769,MA0073.1;0.000192159,MA0074.1;0.082784,MA0076.1;0.142482,MA0077.1;0.394526,MA0078.1;0.959164,MA0081.1;0.627949,MA0083.1;3.12939,MA0084.1;0.632114,MA0087.1;0.490752,MA0088.1;0.0399377,MA0089.1;0,MA0090.1;1.01573,MA0091.1;0.944972,MA0092.1;0.169926,MA0093.1;0.00460532,MA0095.1;0,MA0098.1;0,MA0100.1;3.21191,MA0101.1;1.0866,MA0103.1;0.759332,MA0105.1;0.000889701,MA0106.1;1.88525,MA0107.1;0.967444,MA0108.2;0.231255,MA0109.1;0,MA0111.1;1.09198,MA0113.1;0.129842,MA0114.1;0.139351,MA0115.1;0.190558,MA0116.1;0.156119,MA0117.1;0.171502,MA0119.1;2.55798,MA0122.1;0.539295,MA0124.1;0.855813,MA0125.1;0.736101,MA0130.1;0,MA0131.1;0.0555822,MA0132.1;0,MA0133.1;0,MA0135.1;1.14259,MA0136.1;0.2365,MA0139.1;0.00363407,MA0140.1;1.30098,MA0141.1;0.0314971,MA0142.1;0.0841074,MA0143.1;0.94489,MA0144.1;0.884783,MA0145.1;0.12658,MA0146.1;0.00186313,MA0147.1;0.00142679,MA0148.1;2.5533,MA0149.1;0.0532135,MA0062.2;0.00357242,MA0035.2;0.39028,MA0039.2;1.7448e-07,MA0138.2;0.196293,MA0002.2;1.25688,MA0137.2;1.11848,MA0104.2;0.000295392,MA0047.2;2.08175,MA0112.2;0.0183578,MA0065.2;0.425599,MA0150.1;0.561573,MA0151.1;0,MA0152.1;0.508687,MA0153.1;0.631834,MA0154.1;1.66334,MA0155.1;0.0172055,MA0156.1;0.394908,MA0157.1;1.36824,MA0158.1;0,MA0159.1;0.0240364,MA0160.1;0.0432094,MA0161.1;0,MA0162.1;1.44207e-09,MA0163.1;0.000331013,MA0164.1;0.0955006,MA0080.2;0.524729,MA0018.2;0.0237357,MA0099.2;0.743707,MA0079.2;9.50827e-14,MA0102.2;0.678885,MA0258.1;0.114745,MA0259.1;0.00109868,MA0442.1;0
}}
}}

Revision as of 11:16, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:26542366..26542385,+p3@Arhgap18
Mm9::chr10:33624821..33624853,+p1@Rsph4a
Mm9::chr10:5864020..5864038,-p1@Gm221
Mm9::chr10:59504833..59504865,+p@chr10:59504833..59504865
+
Mm9::chr10:75403378..75403428,-p1@ENSMUST00000059658
p1@uc007fts.1
Mm9::chr10:75405765..75405773,+p4@Vpreb3
Mm9::chr10:75911802..75911813,+p4@2610028H24Rik
Mm9::chr10:75911819..75911838,+p2@2610028H24Rik
Mm9::chr10:75911840..75911854,+p3@2610028H24Rik
Mm9::chr10:75911866..75911880,+p1@2610028H24Rik
Mm9::chr11:106236149..106236164,+p1@2310007L24Rik
Mm9::chr11:46079527..46079538,-p@chr11:46079527..46079538
-
Mm9::chr11:59519852..59519891,+p@chr11:59519852..59519891
+
Mm9::chr11:83243309..83243334,-p1@Gas2l2
Mm9::chr12:100579225..100579266,+p1@3300002A11Rik
Mm9::chr12:102216299..102216339,-p@chr12:102216299..102216339
-
Mm9::chr12:33777748..33777767,-p3@Cdhr3
Mm9::chr13:24797943..24797958,+p@chr13:24797943..24797958
+
Mm9::chr13:46369069..46369081,+p1@Gm1574
Mm9::chr13:47081806..47081833,+p1@uc007qho.1
Mm9::chr14:10466878..10466912,-p@chr14:10466878..10466912
-
Mm9::chr14:14503381..14503433,+p1@Sntn
Mm9::chr14:27511097..27511122,+p@chr14:27511097..27511122
+
Mm9::chr14:27511147..27511157,+p@chr14:27511147..27511157
+
Mm9::chr14:62226292..62226295,+p1@Kcnrg
Mm9::chr14:78488784..78488800,-p2@AU021034
Mm9::chr14:78488801..78488838,-p1@AU021034
Mm9::chr16:17561333..17561347,-p1@4930451C15Rik
Mm9::chr16:90946905..90946937,-p6@Synj1
Mm9::chr17:25923511..25923529,+p2@Ccdc78
Mm9::chr17:25923530..25923558,+p1@Ccdc78
Mm9::chr17:43688212..43688243,-p@chr17:43688212..43688243
-
Mm9::chr17:81296152..81296181,+p1@uc008drl.1
p1@uc008drm.1
Mm9::chr17:8549083..8549096,+p@chr17:8549083..8549096
+
Mm9::chr1:129751573..129751607,-p@chr1:129751573..129751607
-
Mm9::chr1:184388732..184388743,+p@chr1:184388732..184388743
+
Mm9::chr1:193641318..193641331,+p1@uc007ecv.1
Mm9::chr1:4399328..4399356,-p2@Rp1
Mm9::chr1:4399359..4399371,-p5@Rp1
Mm9::chr1:54866808..54866845,-p@chr1:54866808..54866845
-
Mm9::chr1:90359141..90359170,-p@chr1:90359141..90359170
-
Mm9::chr1:90359187..90359199,-p@chr1:90359187..90359199
-
Mm9::chr2:126423769..126423783,-p2@Hdc
Mm9::chr3:27795269..27795278,-p2@Tmem212
Mm9::chr3:27795282..27795312,-p1@Tmem212
Mm9::chr3:57105865..57105878,-p8@Tm4sf1
Mm9::chr3:57105879..57105919,-p5@Tm4sf1
Mm9::chr3:57105921..57105931,-p10@Tm4sf1
Mm9::chr3:75286054..75286088,-p1@uc008pnb.1
Mm9::chr4:106881743..106881764,+p1@Ldlrad1
Mm9::chr4:116269242..116269270,+p2@Ccdc17
Mm9::chr4:116269277..116269308,+p5@Ccdc17
Mm9::chr4:141488821..141488847,-p@chr4:141488821..141488847
-
Mm9::chr4:141488995..141489010,-p3@Fhad1
Mm9::chr5:121084285..121084303,-p1@Ccdc42b
Mm9::chr5:124625404..124625417,+p@chr5:124625404..124625417
+
Mm9::chr5:33163339..33163356,-p@chr5:33163339..33163356
-
Mm9::chr5:92984061..92984096,+p2@Fam47e
Mm9::chr6:128999848..128999869,-p@chr6:128999848..128999869
-
Mm9::chr6:5769801..5769824,-p@chr6:5769801..5769824
-
Mm9::chr6:5769826..5769836,-p@chr6:5769826..5769836
-
Mm9::chr7:109082294..109082320,-p3@Lrrc51
Mm9::chr7:116867358..116867369,-p2@BC051019
Mm9::chr7:116867374..116867403,-p1@BC051019
Mm9::chr7:127239197..127239225,-p@chr7:127239197..127239225
-
Mm9::chr7:31550425..31550469,+p@chr7:31550425..31550469
+
Mm9::chr7:56417518..56417541,-p@chr7:56417518..56417541
-
Mm9::chr9:107894782..107894793,+p2@ENSMUST00000061248
Mm9::chr9:107894794..107894853,+p1@ENSMUST00000061248
Mm9::chr9:44048751..44048776,+p1@Ccdc153
Mm9::chr9:67003026..67003038,-p@chr9:67003026..67003038
-
Mm9::chr9:99351841..99351855,+p@chr9:99351841..99351855
+
Mm9::chr9:99351856..99351872,+p@chr9:99351856..99351872
+


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

GO IDGO nameFDR corrected p-value
GO:0017120polyphosphoinositide phosphatase activity0.0433901276502493
GO:0004398histidine decarboxylase activity0.0433901276502493



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
lung1.09e-1114
respiratory tube1.09e-1114
respiration organ1.09e-1114
pair of lungs1.09e-1114
lung primordium1.09e-1114
lung bud1.09e-1114
epithelial bud4.88e-0917
thoracic cavity element4.88e-0917
thoracic segment organ4.88e-0917
thoracic cavity4.88e-0917
thoracic segment of trunk4.88e-0917
respiratory primordium4.88e-0917
endoderm of foregut4.88e-0917
epithelial fold3.31e-0720


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)
MA0003.12.22798e-10
MA0004.10.0358327
MA0006.10.0132108
MA0007.10.197631
MA0009.10.829831
MA0014.15.71259e-07
MA0017.10.0203775
MA0019.10.0570687
MA0024.10.11295
MA0025.10.278029
MA0027.11.56266
MA0028.10.0157618
MA0029.10.102863
MA0030.12.30894
MA0031.12.12736
MA0038.10.113773
MA0040.10.141215
MA0041.10.223858
MA0042.10.739598
MA0043.10.188871
MA0046.10.153843
MA0048.10.0452046
MA0050.10.141333
MA0051.10.120308
MA0052.10.145506
MA0055.11.98658
MA0056.10
MA0057.10.031777
MA0058.10.0112504
MA0059.10.108065
MA0060.10.0919731
MA0061.10.352146
MA0063.10
MA0066.10.0248976
MA0067.10.359458
MA0068.10.643288
MA0069.10.447014
MA0070.10.14053
MA0071.10.140459
MA0072.10.422769
MA0073.10.000192159
MA0074.10.082784
MA0076.10.142482
MA0077.10.394526
MA0078.10.959164
MA0081.10.627949
MA0083.13.12939
MA0084.10.632114
MA0087.10.490752
MA0088.10.0399377
MA0089.10
MA0090.11.01573
MA0091.10.944972
MA0092.10.169926
MA0093.10.00460532
MA0095.10
MA0098.10
MA0100.13.21191
MA0101.11.0866
MA0103.10.759332
MA0105.10.000889701
MA0106.11.88525
MA0107.10.967444
MA0108.20.231255
MA0109.10
MA0111.11.09198
MA0113.10.129842
MA0114.10.139351
MA0115.10.190558
MA0116.10.156119
MA0117.10.171502
MA0119.12.55798
MA0122.10.539295
MA0124.10.855813
MA0125.10.736101
MA0130.10
MA0131.10.0555822
MA0132.10
MA0133.10
MA0135.11.14259
MA0136.10.2365
MA0139.10.00363407
MA0140.11.30098
MA0141.10.0314971
MA0142.10.0841074
MA0143.10.94489
MA0144.10.884783
MA0145.10.12658
MA0146.10.00186313
MA0147.10.00142679
MA0148.12.5533
MA0149.10.0532135
MA0062.20.00357242
MA0035.20.39028
MA0039.21.7448e-07
MA0138.20.196293
MA0002.21.25688
MA0137.21.11848
MA0104.20.000295392
MA0047.22.08175
MA0112.20.0183578
MA0065.20.425599
MA0150.10.561573
MA0151.10
MA0152.10.508687
MA0153.10.631834
MA0154.11.66334
MA0155.10.0172055
MA0156.10.394908
MA0157.11.36824
MA0158.10
MA0159.10.0240364
MA0160.10.0432094
MA0161.10
MA0162.11.44207e-09
MA0163.10.000331013
MA0164.10.0955006
MA0080.20.524729
MA0018.20.0237357
MA0099.20.743707
MA0079.29.50827e-14
MA0102.20.678885
MA0258.10.114745
MA0259.10.00109868
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:152&oldid=2573547"