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MCL coexpression mm9:424: Difference between revisions

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{{MCL_coexpression_mm9
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activity;0.0126006683832795;76025!GO:0045134;uridine-diphosphatase activity;0.0126006683832795;76025!GO:0009191;ribonucleoside diphosphate catabolic process;0.0251654610230754;76025!GO:0009185;ribonucleoside diphosphate metabolic process;0.0251654610230754;76025!GO:0009134;nucleoside diphosphate catabolic process;0.0251654610230754;76025!GO:0009261;ribonucleotide catabolic process;0.0251654610230754;76025!GO:0005452;inorganic anion exchanger activity;0.0251654610230754;20535!GO:0017110;nucleoside-diphosphatase activity;0.0251654610230754;76025!GO:0015380;anion exchanger activity;0.0251654610230754;20535!GO:0015106;bicarbonate transmembrane transporter activity;0.0251654610230754;20535!GO:0015301;anion:anion antiporter activity;0.0251654610230754;20535!GO:0015108;chloride transmembrane transporter activity;0.0251654610230754;20535!GO:0009132;nucleoside diphosphate metabolic process;0.0251654610230754;76025!GO:0030057;desmosome;0.0251654610230754;13511!GO:0009166;nucleotide catabolic process;0.0368769999257902;76025!GO:0004263;chymotrypsin activity;0.0413854539292577;69814!GO:0015103;inorganic anion transmembrane transporter activity;0.0413854539292577;20535!GO:0004295;trypsin 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|gostat_on_MCL_coexpression=GO:0004382;guanosine-diphosphatase activity;0.0126006683832795;76025!GO:0045134;uridine-diphosphatase activity;0.0126006683832795;76025!GO:0009191;ribonucleoside diphosphate catabolic process;0.0251654610230754;76025!GO:0009185;ribonucleoside diphosphate metabolic process;0.0251654610230754;76025!GO:0009134;nucleoside diphosphate catabolic process;0.0251654610230754;76025!GO:0009261;ribonucleotide catabolic process;0.0251654610230754;76025!GO:0005452;inorganic anion exchanger activity;0.0251654610230754;20535!GO:0017110;nucleoside-diphosphatase activity;0.0251654610230754;76025!GO:0015380;anion exchanger activity;0.0251654610230754;20535!GO:0015106;bicarbonate transmembrane transporter activity;0.0251654610230754;20535!GO:0015301;anion:anion antiporter activity;0.0251654610230754;20535!GO:0015108;chloride transmembrane transporter activity;0.0251654610230754;20535!GO:0009132;nucleoside diphosphate metabolic process;0.0251654610230754;76025!GO:0030057;desmosome;0.0251654610230754;13511!GO:0009166;nucleotide catabolic process;0.0368769999257902;76025!GO:0004263;chymotrypsin activity;0.0413854539292577;69814!GO:0015103;inorganic anion transmembrane transporter activity;0.0413854539292577;20535!GO:0004295;trypsin activity;0.0432598518775996;69814!
|ontology_enrichment_celltype=CL:0002563!8.32e-12!9;CL:0002251!8.32e-12!9;CL:0000239!7.94e-09!6;CL:0000677!7.94e-09!6;CL:0000212!7.94e-09!6;CL:0000584!7.94e-09!6;CL:0000075!2.22e-07!7
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!2.24e-32!31;UBERON:0005409!4.77e-32!47;UBERON:0000344!1.25e-19!15;UBERON:0001242!5.60e-17!13;UBERON:0000060!5.60e-17!13;UBERON:0001262!5.60e-17!13;UBERON:0004786!5.60e-17!13;UBERON:0004923!1.59e-14!24;UBERON:0003350!8.32e-12!9;UBERON:0004808!8.32e-12!9;UBERON:0001277!8.32e-12!9;UBERON:0004119!3.24e-11!118;UBERON:0000925!3.24e-11!118;UBERON:0006595!3.24e-11!118;UBERON:0001007!3.07e-10!116;UBERON:0001555!3.07e-10!116;UBERON:0007026!3.07e-10!116;UBERON:0000485!3.31e-09!11;UBERON:0004921!6.37e-09!114
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.239198,0.144778,0.558894,0.572598,0.201606,0.270195,1.84669,0.361988,0.222734,0.236307,0.260789,0.340991,0.27987,1.03205,0,0.44163,0.552297,0.889823,0.478834,0.121654,1.05054,0.279154,0.26934,0.457081,0.301898,0.849653,0.216938,0.338701,0.203444,0.595646,0.531719,0.257084,0.756943,0.296456,0.0591471,0.0693463,0.257981,0.812295,0.177517,0.56228,0.604618,0.28733,0.298695,0.727797,0.183361,0.372907,0.228683,1.07561,0.343195,0.426383,0.323798,0.61775,0.661847,0.67813,0.28555,0.722962,0.25091,0.806525,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,1.14639,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.0896041,0.709559,0.256968,0.445056,1.10669,0.363297,0.498264,0.124234,0.155185,0.456892,0.330377,0.326128,0.602212,0.333038,0.788585,0.0797642,0.377064,1.30447,0.873554,0.606796,0.543309,0.587829,0.057338,0.186449,0.14406,0.545856,0.373124,0.0619917,0.244202,0.531465,1.55675,0.4269,0.425983,0.21005,0.478524,0.225669,0.127231,0.122746,0.476067,0.647285,0.787233,0.240232,0.880323,0.263255,0.461856,1.07444,0.442771,1.32618,1.70038,0.398522,0.303371,0.362534,0.932468,0.501574,0.276618,0.53717,0.805419,0.59554,0.629874,0.186072,0.777296,0.296474,0.9011,0.174785,0.501821,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.169369,0.0799646,1.35331,0.0216311,0.66331,0.754242,0.29573,0.739975,0.324625,0.313539,0.938758,0.167568,0.862985,0.601424,0.501973,0.919703,1.07177,0.788653,0.242542,1.32568,0.979717
|tfbs_overrepresentation_jaspar=MA0003.1;0.152339,MA0004.1;0.559722,MA0006.1;0.0854592,MA0007.1;0.181021,MA0009.1;0.5557,MA0014.1;0.0934921,MA0017.1;1.64429,MA0019.1;0.394308,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;0.0910441,MA0029.1;0.496599,MA0030.1;0.502474,MA0031.1;1.18689,MA0038.1;0.815918,MA0040.1;0.567108,MA0041.1;0.854076,MA0042.1;0.818083,MA0043.1;0.644695,MA0046.1;2.4507,MA0048.1;1.99863,MA0050.1;0.626793,MA0051.1;0.832236,MA0052.1;0.574473,MA0055.1;1.00277,MA0056.1;0,MA0057.1;0.297183,MA0058.1;0.799579,MA0059.1;0.421089,MA0060.1;0.713774,MA0061.1;0.218812,MA0063.1;0,MA0066.1;0.795934,MA0067.1;0.879099,MA0068.1;0.309163,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.219128,MA0072.1;0.558195,MA0073.1;0.00125098,MA0074.1;0.264633,MA0076.1;0.110983,MA0077.1;0.538513,MA0078.1;0.336143,MA0081.1;0.150322,MA0083.1;0.643958,MA0084.1;1.1979,MA0087.1;0.604077,MA0088.1;0.336188,MA0089.1;0,MA0090.1;0.167748,MA0091.1;0.200988,MA0092.1;0.502322,MA0093.1;0.316906,MA0095.1;0,MA0098.1;0,MA0100.1;0.255651,MA0101.1;0.141127,MA0103.1;0.702489,MA0105.1;0.0968542,MA0106.1;1.62537,MA0107.1;0.102611,MA0108.2;1.87232,MA0109.1;0,MA0111.1;0.525581,MA0113.1;0.319332,MA0114.1;1.23875,MA0115.1;0.647296,MA0116.1;2.06947,MA0117.1;0.617392,MA0119.1;0.141504,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;0.0357525,MA0140.1;2.02354,MA0141.1;1.23603,MA0142.1;0.457961,MA0143.1;0.332773,MA0144.1;0.219807,MA0145.1;0.370702,MA0146.1;1.42786,MA0147.1;0.509077,MA0148.1;0.587598,MA0149.1;0.144679,MA0062.2;0.0237736,MA0035.2;3.73515,MA0039.2;0.156205,MA0138.2;1.76837,MA0002.2;0.338271,MA0137.2;0.116005,MA0104.2;0.371038,MA0047.2;0.301217,MA0112.2;1.15703,MA0065.2;0.850684,MA0150.1;0.180943,MA0151.1;0,MA0152.1;0.301303,MA0153.1;2.78955,MA0154.1;0.829187,MA0155.1;0.430598,MA0156.1;0.356573,MA0157.1;1.09863,MA0158.1;0,MA0159.1;0.0715631,MA0160.1;0.205397,MA0161.1;0,MA0162.1;0.00359771,MA0163.1;0.375837,MA0164.1;0.280556,MA0080.2;1.13886,MA0018.2;0.288261,MA0099.2;1.74984,MA0079.2;0.0252744,MA0102.2;1.24942,MA0258.1;0.197969,MA0259.1;0.221921,MA0442.1;0
}}

Latest revision as of 15:16, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:118277114..118277138,-p3@Cant1
Mm9::chr11:58192538..58192554,+p1@2210415F13Rik
Mm9::chr11:58196298..58196316,+p@chr11:58196298..58196316
+
Mm9::chr14:8849148..8849194,+p@chr14:8849148..8849194
+
Mm9::chr17:23990719..23990747,+p1@Prss32
Mm9::chr18:20716778..20716781,+p4@Dsg2
Mm9::chr1:135101254..135101286,+p@chr1:135101254..135101286
+
Mm9::chr3:122215088..122215124,+p@chr3:122215088..122215124
+
Mm9::chr4:119310297..119310302,+p3@Guca2a
Mm9::chr4:119310309..119310326,+p1@Guca2a
Mm9::chr4:119310332..119310344,+p2@Guca2a
Mm9::chr4:119311395..119311417,-p@chr4:119311395..119311417
-
Mm9::chr5:114593479..114593491,+p@chr5:114593479..114593491
+
Mm9::chr5:117769350..117769361,+p4@Vsig10
Mm9::chr5:143573837..143573852,+p@chr5:143573837..143573852
+
Mm9::chr5:23934066..23934086,+p8@Slc4a2
Mm9::chr5:4023343..4023357,+p@chr5:4023343..4023357
+
Mm9::chr7:52976553..52976603,+p1@Fam83e


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:0004382guanosine-diphosphatase activity0.0126006683832795
GO:0045134uridine-diphosphatase activity0.0126006683832795
GO:0009191ribonucleoside diphosphate catabolic process0.0251654610230754
GO:0009185ribonucleoside diphosphate metabolic process0.0251654610230754
GO:0009134nucleoside diphosphate catabolic process0.0251654610230754
GO:0009261ribonucleotide catabolic process0.0251654610230754
GO:0005452inorganic anion exchanger activity0.0251654610230754
GO:0017110nucleoside-diphosphatase activity0.0251654610230754
GO:0015380anion exchanger activity0.0251654610230754
GO:0015106bicarbonate transmembrane transporter activity0.0251654610230754
GO:0015301anion:anion antiporter activity0.0251654610230754
GO:0015108chloride transmembrane transporter activity0.0251654610230754
GO:0009132nucleoside diphosphate metabolic process0.0251654610230754
GO:0030057desmosome0.0251654610230754
GO:0009166nucleotide catabolic process0.0368769999257902
GO:0004263chymotrypsin activity0.0413854539292577
GO:0015103inorganic anion transmembrane transporter activity0.0413854539292577
GO:0004295trypsin activity0.0432598518775996



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>


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)
MA0003.10.152339
MA0004.10.559722
MA0006.10.0854592
MA0007.10.181021
MA0009.10.5557
MA0014.10.0934921
MA0017.11.64429
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.10.0910441
MA0029.10.496599
MA0030.10.502474
MA0031.11.18689
MA0038.10.815918
MA0040.10.567108
MA0041.10.854076
MA0042.10.818083
MA0043.10.644695
MA0046.12.4507
MA0048.11.99863
MA0050.10.626793
MA0051.10.832236
MA0052.10.574473
MA0055.11.00277
MA0056.10
MA0057.10.297183
MA0058.10.799579
MA0059.10.421089
MA0060.10.713774
MA0061.10.218812
MA0063.10
MA0066.10.795934
MA0067.10.879099
MA0068.10.309163
MA0069.10.574784
MA0070.10.565924
MA0071.10.219128
MA0072.10.558195
MA0073.10.00125098
MA0074.10.264633
MA0076.10.110983
MA0077.10.538513
MA0078.10.336143
MA0081.10.150322
MA0083.10.643958
MA0084.11.1979
MA0087.10.604077
MA0088.10.336188
MA0089.10
MA0090.10.167748
MA0091.10.200988
MA0092.10.502322
MA0093.10.316906
MA0095.10
MA0098.10
MA0100.10.255651
MA0101.10.141127
MA0103.10.702489
MA0105.10.0968542
MA0106.11.62537
MA0107.10.102611
MA0108.21.87232
MA0109.10
MA0111.10.525581
MA0113.10.319332
MA0114.11.23875
MA0115.10.647296
MA0116.12.06947
MA0117.10.617392
MA0119.10.141504
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.10.67864
MA0136.10.280269
MA0139.10.0357525
MA0140.12.02354
MA0141.11.23603
MA0142.10.457961
MA0143.10.332773
MA0144.10.219807
MA0145.10.370702
MA0146.11.42786
MA0147.10.509077
MA0148.10.587598
MA0149.10.144679
MA0062.20.0237736
MA0035.23.73515
MA0039.20.156205
MA0138.21.76837
MA0002.20.338271
MA0137.20.116005
MA0104.20.371038
MA0047.20.301217
MA0112.21.15703
MA0065.20.850684
MA0150.10.180943
MA0151.10
MA0152.10.301303
MA0153.12.78955
MA0154.10.829187
MA0155.10.430598
MA0156.10.356573
MA0157.11.09863
MA0158.10
MA0159.10.0715631
MA0160.10.205397
MA0161.10
MA0162.10.00359771
MA0163.10.375837
MA0164.10.280556
MA0080.21.13886
MA0018.20.288261
MA0099.21.74984
MA0079.20.0252744
MA0102.21.24942
MA0258.10.197969
MA0259.10.221921
MA0442.10
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