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MCL coexpression mm9:147: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002048!1.49e-33!14;UBERON:0000117!1.49e-33!14;UBERON:0000171!1.49e-33!14;UBERON:0000170!1.49e-33!14;UBERON:0005597!1.49e-33!14;UBERON:0000118!1.49e-33!14;UBERON:0005153!2.18e-27!17;UBERON:0005178!2.18e-27!17;UBERON:0005181!2.18e-27!17;UBERON:0002224!2.18e-27!17;UBERON:0000915!2.18e-27!17;UBERON:0008947!2.18e-27!17;UBERON:0003258!2.18e-27!17;UBERON:0005157!4.54e-23!20;UBERON:0000065!1.70e-10!41;UBERON:0001004!3.29e-10!42;UBERON:0000464!4.04e-07!57
|ontology_enrichment_uberon=UBERON:0002048!1.49e-33!14;UBERON:0000117!1.49e-33!14;UBERON:0000171!1.49e-33!14;UBERON:0000170!1.49e-33!14;UBERON:0005597!1.49e-33!14;UBERON:0000118!1.49e-33!14;UBERON:0005153!2.18e-27!17;UBERON:0005178!2.18e-27!17;UBERON:0005181!2.18e-27!17;UBERON:0002224!2.18e-27!17;UBERON:0000915!2.18e-27!17;UBERON:0008947!2.18e-27!17;UBERON:0003258!2.18e-27!17;UBERON:0005157!4.54e-23!20;UBERON:0000065!1.70e-10!41;UBERON:0001004!3.29e-10!42;UBERON:0000464!4.04e-07!57
|tfbs_overrepresentation_for_novel_motifs=0.129234,0.0142223,0.0413035,0.184963,0.59291,0.206575,0.0728399,0.396098,0.322772,0.0266597,0.0102024,0.57768,0.123402,0.0798205,1.72773,0,0.0669724,0.39333,0.440994,0.318814,0.567203,0.231725,0.0174662,0.0214332,0.538897,0.0222934,0.522894,0.114392,0.00409062,0.0842771,0.0349811,0.713885,0.0183312,0.398899,0.0100109,0.148583,0.142125,0.0644755,1.40575,0.114226,0.986864,0.0368275,0.388133,1.74883,0.339667,0.169154,0.161756,0.0465099,1.25929,0.644699,0.219558,0.0275925,0.0112126,0.183641,3.1806,0.0187545,0.329484,0.0598656,0.463591,0.0184223,0.0995356,0.0296263,1.06979,0.0571113,0.0206377,0.24957,0.774573,0.560216,0.66206,0.437083,0.0013408,0.307619,1.62214e-05,0.615239,2.07732e-05,0.0226391,0.832466,0.350687,0.307387,0.399828,0.0829644,0.0733631,0.534036,0.0638867,0.147288,1.36263e-10,0.00270183,0.615363,0.165992,0.703643,0.334085,0.14997,1.21572,1.93188,0.0517243,0.305139,0.516121,0.115971,0.0418739,0.336191,3.00978,0.351337,0.173448,0.479196,0.825242,0.00687733,0.0828978,0.99178,0.0290628,0.0010013,0.0514436,0.174479,0.813756,0.0532324,0.899989,0.401795,7.79556e-07,0.087326,0.0674403,1.60196,0.218281,1.13341,1.93981,0.628526,0.380615,0.0936555,0.637399,0.111428,0.282532,0.0598296,0.491987,0.750139,0.72526,0.0925156,0.355631,0.163439,0.898407,0.401338,0.318925,1.04798,0.674956,0.286919,0.106142,0.364576,0.807304,0.624177,3.10331,1.01005,0.266459,0.00745781,0.00684083,4.41406e-10,2.33001,0.0810047,0.0209163,1.236,1.19785,0.551036,4.60443,0.00313115,0.325921,0.881899,0.0938469,0.226809,0.0574465,1.0161,0.0774985,0.573085,0.000768618
|tfbs_overrepresentation_for_novel_motifs=0.129234,0.0142223,0.0413035,0.184963,0.59291,0.206575,0.0728399,0.396098,0.322772,0.0266597,0.0102024,0.57768,0.123402,0.0798205,1.72773,0,0.0669724,0.39333,0.440994,0.318814,0.567203,0.231725,0.0174662,0.0214332,0.538897,0.0222934,0.522894,0.114392,0.00409062,0.0842771,0.0349811,0.713885,0.0183312,0.398899,0.0100109,0.148583,0.142125,0.0644755,1.40575,0.114226,0.986864,0.0368275,0.388133,1.74883,0.339667,0.169154,0.161756,0.0465099,1.25929,0.644699,0.219558,0.0275925,0.0112126,0.183641,3.1806,0.0187545,0.329484,0.0598656,0.463591,0.0184223,0.0995356,0.0296263,1.06979,0.0571113,0.0206377,0.24957,0.774573,0.560216,0.66206,0.437083,0.0013408,0.307619,1.62214e-05,0.615239,2.07732e-05,0.0226391,0.832466,0.350687,0.307387,0.399828,0.0829644,0.0733631,0.534036,0.0638867,0.147288,1.36263e-10,0.00270183,0.615363,0.165992,0.703643,0.334085,0.14997,1.21572,1.93188,0.0517243,0.305139,0.516121,0.115971,0.0418739,0.336191,3.00978,0.351337,0.173448,0.479196,0.825242,0.00687733,0.0828978,0.99178,0.0290628,0.0010013,0.0514436,0.174479,0.813756,0.0532324,0.899989,0.401795,7.79556e-07,0.087326,0.0674403,1.60196,0.218281,1.13341,1.93981,0.628526,0.380615,0.0936555,0.637399,0.111428,0.282532,0.0598296,0.491987,0.750139,0.72526,0.0925156,0.355631,0.163439,0.898407,0.401338,0.318925,1.04798,0.674956,0.286919,0.106142,0.364576,0.807304,0.624177,3.10331,1.01005,0.266459,0.00745781,0.00684083,4.41406e-10,2.33001,0.0810047,0.0209163,1.236,1.19785,0.551036,4.60443,0.00313115,0.325921,0.881899,0.0938469,0.226809,0.0574465,1.0161,0.0774985,0.573085,0.000768618
|tfbs_overrepresentation_jaspar=MA0003.1;4.10668e-12,MA0004.1;0.0281506,MA0006.1;0.00913937,MA0007.1;0.0736386,MA0009.1;0.38461,MA0014.1;1.10734e-07,MA0017.1;0.0408234,MA0019.1;2.08913,MA0024.1;0.330736,MA0025.1;2.04123,MA0027.1;1.5343,MA0028.1;0.00262823,MA0029.1;0.632555,MA0030.1;1.07658,MA0031.1;0.970824,MA0038.1;0.45372,MA0040.1;1.88341,MA0041.1;0.0931605,MA0042.1;0.162548,MA0043.1;0.989946,MA0046.1;1.98201,MA0048.1;0.00291517,MA0050.1;0.117918,MA0051.1;0.0239586,MA0052.1;0.815987,MA0055.1;0.0318034,MA0056.1;0,MA0057.1;0.139159,MA0058.1;0.0293802,MA0059.1;0.0344976,MA0060.1;0.00140843,MA0061.1;0.282339,MA0063.1;0,MA0066.1;0.429621,MA0067.1;0.897868,MA0068.1;0.153521,MA0069.1;0.411471,MA0070.1;0.398931,MA0071.1;0.66416,MA0072.1;0.122558,MA0073.1;1.7119,MA0074.1;0.180279,MA0076.1;0.00512595,MA0077.1;0.729896,MA0078.1;0.299865,MA0081.1;1.34452,MA0083.1;0.513225,MA0084.1;0.607113,MA0087.1;0.888449,MA0088.1;0.0232681,MA0089.1;0,MA0090.1;0.429308,MA0091.1;1.14728,MA0092.1;0.643391,MA0093.1;0.0127943,MA0095.1;0,MA0098.1;0,MA0100.1;0.558595,MA0101.1;0.491093,MA0103.1;0.650917,MA0105.1;0.079485,MA0106.1;0.13227,MA0107.1;0.438103,MA0108.2;0.787084,MA0109.1;0,MA0111.1;0.1577,MA0113.1;0.26979,MA0114.1;0.177417,MA0115.1;0.174486,MA0116.1;0.0270395,MA0117.1;0.156243,MA0119.1;0.960171,MA0122.1;0.967437,MA0124.1;0.299413,MA0125.1;1.28269,MA0130.1;0,MA0131.1;0.0476439,MA0132.1;0,MA0133.1;0,MA0135.1;6.87799,MA0136.1;0.395563,MA0139.1;0.000527107,MA0140.1;0.558266,MA0141.1;0.540196,MA0142.1;1.92425,MA0143.1;0.858993,MA0144.1;0.747421,MA0145.1;0.619378,MA0146.1;5.8742e-05,MA0147.1;0.000880085,MA0148.1;1.16419,MA0149.1;0.0412279,MA0062.2;0.0056732,MA0035.2;0.571771,MA0039.2;0.221299,MA0138.2;0.172789,MA0002.2;1.28717,MA0137.2;0.356967,MA0104.2;0.000161859,MA0047.2;2.41823,MA0112.2;0.235037,MA0065.2;0.0841518,MA0150.1;0.487369,MA0151.1;0,MA0152.1;0.0963738,MA0153.1;1.11655,MA0154.1;0.173987,MA0155.1;0.00965619,MA0156.1;0.0195189,MA0157.1;0.485466,MA0158.1;0,MA0159.1;0.244182,MA0160.1;0.381088,MA0161.1;0,MA0162.1;3.7655e-06,MA0163.1;0.0109289,MA0164.1;0.396321,MA0080.2;0.441445,MA0018.2;0.217281,MA0099.2;0.043553,MA0079.2;9.32847e-12,MA0102.2;0.653468,MA0258.1;0.0852618,MA0259.1;0.000664458,MA0442.1;0
}}
}}

Revision as of 11:15, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:107209466..107209493,-p6@Pitpnc1
Mm9::chr11:107209509..107209527,-p8@Pitpnc1
Mm9::chr11:120590834..120590843,-p@chr11:120590834..120590843
-
Mm9::chr11:120590872..120590952,+p@chr11:120590872..120590952
+
Mm9::chr11:120590980..120591002,+p@chr11:120590980..120591002
+
Mm9::chr11:120590988..120591010,-p@chr11:120590988..120591010
-
Mm9::chr11:120591128..120591136,-p@chr11:120591128..120591136
-
Mm9::chr11:120591618..120591626,-p2@Cbr2
Mm9::chr11:120591790..120591801,-p4@Cbr2
Mm9::chr11:120591816..120591829,-p3@Cbr2
Mm9::chr11:120592141..120592159,-p@chr11:120592141..120592159
-
Mm9::chr11:120592356..120592367,-p@chr11:120592356..120592367
-
Mm9::chr11:120593297..120593312,-p1@Cbr2
Mm9::chr11:120609314..120609317,-p@chr11:120609314..120609317
-
Mm9::chr11:30121640..30121646,+p@chr11:30121640..30121646
+
Mm9::chr11:3964884..3964901,+p1@Sec14l3
Mm9::chr11:3964912..3964930,+p2@Sec14l3
Mm9::chr11:89896063..89896075,+p@chr11:89896063..89896075
+
Mm9::chr11:89896092..89896106,+p@chr11:89896092..89896106
+
Mm9::chr13:113971164..113971175,-p1@Gzmk
Mm9::chr13:42961804..42961819,+p16@Phactr1
Mm9::chr13:92070234..92070242,+p@chr13:92070234..92070242
+
Mm9::chr13:92070269..92070276,+p@chr13:92070269..92070276
+
Mm9::chr14:32371068..32371080,-p3@Colq
Mm9::chr14:41947925..41947941,+p@chr14:41947925..41947941
+
Mm9::chr14:70936011..70936035,+p@chr14:70936011..70936035
+
Mm9::chr15:57491606..57491613,-p@chr15:57491606..57491613
-
Mm9::chr15:76447545..76447556,-p5@Slc39a4
Mm9::chr15:76447559..76447576,-p6@Slc39a4
Mm9::chr15:79996197..79996201,+p@chr15:79996197..79996201
+
Mm9::chr16:92519298..92519322,+p@chr16:92519298..92519322
+
Mm9::chr17:27382011..27382021,-p@chr17:27382011..27382021
-
Mm9::chr17:28116011..28116035,+p@chr17:28116011..28116035
+
Mm9::chr17:34735388..34735395,+p@chr17:34735388..34735395
+
Mm9::chr17:87159776..87159787,+p@chr17:87159776..87159787
+
Mm9::chr17:87226886..87226907,-p@chr17:87226886..87226907
-
Mm9::chr19:49442800..49442806,-p@chr19:49442800..49442806
-
Mm9::chr19:9158157..9158192,-p@chr19:9158157..9158192
-
Mm9::chr19:9158189..9158194,+p@chr19:9158189..9158194
+
Mm9::chr19:9158204..9158211,+p@chr19:9158204..9158211
+
Mm9::chr19:9158204..9158213,-p@chr19:9158204..9158213
-
Mm9::chr19:9158216..9158233,-p@chr19:9158216..9158233
-
Mm9::chr19:9158235..9158240,-p@chr19:9158235..9158240
-
Mm9::chr19:9158241..9158266,-p@chr19:9158241..9158266
-
Mm9::chr19:9158281..9158290,-p@chr19:9158281..9158290
-
Mm9::chr19:9158293..9158303,-p@chr19:9158293..9158303
-
Mm9::chr19:9159673..9159694,+p@chr19:9159673..9159694
+
Mm9::chr19:9159710..9159829,-p@chr19:9159710..9159829
-
Mm9::chr19:9159831..9159840,-p@chr19:9159831..9159840
-
Mm9::chr19:9159845..9159898,-p@chr19:9159845..9159898
-
Mm9::chr19:9162435..9162452,-p1@Scgb1a1
Mm9::chr1:164796490..164796533,-p4@Fmo1
Mm9::chr1:184333318..184333337,-p@chr1:184333318..184333337
-
Mm9::chr1:21288301..21288341,-p1@Gm4956
Mm9::chr1:40657758..40657794,+p@chr1:40657758..40657794
+
Mm9::chr1:73975078..73975103,-p4@Tns1
Mm9::chr2:104342689..104342700,-p@chr2:104342689..104342700
-
Mm9::chr2:131944253..131944261,-p@chr2:131944253..131944261
-
Mm9::chr2:131944500..131944511,-p@chr2:131944500..131944511
-
Mm9::chr2:153968616..153968621,+p1@Bpifa1
Mm9::chr2:164374820..164374835,-p@chr2:164374820..164374835
-
Mm9::chr2:164374839..164374850,-p@chr2:164374839..164374850
-
Mm9::chr4:53240210..53240250,+p@chr4:53240210..53240250
+
Mm9::chr4:67901948..67901953,-p@chr4:67901948..67901953
-
Mm9::chr5:104076512..104076524,-p@chr5:104076512..104076524
-
Mm9::chr5:124625423..124625439,+p@chr5:124625423..124625439
+
Mm9::chr6:125271876..125271887,+p@chr6:125271876..125271887
+
Mm9::chr6:128074330..128074341,-p6@Tspan9
Mm9::chr6:128074349..128074373,-p3@Tspan9
Mm9::chr6:83156088..83156098,+p@chr6:83156088..83156098
+
Mm9::chr6:83156112..83156124,+p@chr6:83156112..83156124
+
Mm9::chr7:133495063..133495074,-p@chr7:133495063..133495074
-
Mm9::chr7:28546351..28546372,-p@chr7:28546351..28546372
-
Mm9::chr8:3685317..3685322,-p@chr8:3685317..3685322
-
Mm9::chr8:42103084..42103098,+p1@ENSMUST00000152188
Mm9::chr8:42124922..42124935,-p21@Mtus1
Mm9::chr9:118610978..118610987,-p@chr9:118610978..118610987
-
Mm9::chr9:79487579..79487585,-p10@Col12a1


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:0006811ion transport0.026953790878137
GO:0006116NADH oxidation0.0444858379444475
GO:0008526phosphatidylinositol transporter activity0.0444858379444475
GO:0006734NADH metabolic process0.0444858379444475



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
lung1.49e-3314
respiratory tube1.49e-3314
respiration organ1.49e-3314
pair of lungs1.49e-3314
lung primordium1.49e-3314
lung bud1.49e-3314
epithelial bud2.18e-2717
thoracic cavity element2.18e-2717
thoracic segment organ2.18e-2717
thoracic cavity2.18e-2717
thoracic segment of trunk2.18e-2717
respiratory primordium2.18e-2717
endoderm of foregut2.18e-2717
epithelial fold4.54e-2320
respiratory tract1.70e-1041
respiratory system3.29e-1042
anatomical space4.04e-0757


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)
MA0003.14.10668e-12
MA0004.10.0281506
MA0006.10.00913937
MA0007.10.0736386
MA0009.10.38461
MA0014.11.10734e-07
MA0017.10.0408234
MA0019.12.08913
MA0024.10.330736
MA0025.12.04123
MA0027.11.5343
MA0028.10.00262823
MA0029.10.632555
MA0030.11.07658
MA0031.10.970824
MA0038.10.45372
MA0040.11.88341
MA0041.10.0931605
MA0042.10.162548
MA0043.10.989946
MA0046.11.98201
MA0048.10.00291517
MA0050.10.117918
MA0051.10.0239586
MA0052.10.815987
MA0055.10.0318034
MA0056.10
MA0057.10.139159
MA0058.10.0293802
MA0059.10.0344976
MA0060.10.00140843
MA0061.10.282339
MA0063.10
MA0066.10.429621
MA0067.10.897868
MA0068.10.153521
MA0069.10.411471
MA0070.10.398931
MA0071.10.66416
MA0072.10.122558
MA0073.11.7119
MA0074.10.180279
MA0076.10.00512595
MA0077.10.729896
MA0078.10.299865
MA0081.11.34452
MA0083.10.513225
MA0084.10.607113
MA0087.10.888449
MA0088.10.0232681
MA0089.10
MA0090.10.429308
MA0091.11.14728
MA0092.10.643391
MA0093.10.0127943
MA0095.10
MA0098.10
MA0100.10.558595
MA0101.10.491093
MA0103.10.650917
MA0105.10.079485
MA0106.10.13227
MA0107.10.438103
MA0108.20.787084
MA0109.10
MA0111.10.1577
MA0113.10.26979
MA0114.10.177417
MA0115.10.174486
MA0116.10.0270395
MA0117.10.156243
MA0119.10.960171
MA0122.10.967437
MA0124.10.299413
MA0125.11.28269
MA0130.10
MA0131.10.0476439
MA0132.10
MA0133.10
MA0135.16.87799
MA0136.10.395563
MA0139.10.000527107
MA0140.10.558266
MA0141.10.540196
MA0142.11.92425
MA0143.10.858993
MA0144.10.747421
MA0145.10.619378
MA0146.15.8742e-05
MA0147.10.000880085
MA0148.11.16419
MA0149.10.0412279
MA0062.20.0056732
MA0035.20.571771
MA0039.20.221299
MA0138.20.172789
MA0002.21.28717
MA0137.20.356967
MA0104.20.000161859
MA0047.22.41823
MA0112.20.235037
MA0065.20.0841518
MA0150.10.487369
MA0151.10
MA0152.10.0963738
MA0153.11.11655
MA0154.10.173987
MA0155.10.00965619
MA0156.10.0195189
MA0157.10.485466
MA0158.10
MA0159.10.244182
MA0160.10.381088
MA0161.10
MA0162.13.7655e-06
MA0163.10.0109289
MA0164.10.396321
MA0080.20.441445
MA0018.20.217281
MA0099.20.043553
MA0079.29.32847e-12
MA0102.20.653468
MA0258.10.0852618
MA0259.10.000664458
MA0442.10
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