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MCL coexpression mm9:245: Difference between revisions

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{{MCL_coexpression_mm9
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activity;0.0124910973538596;93719!GO:0004518;nuclease activity;0.0145729469128362;93719!GO:0016788;hydrolase activity, acting on ester bonds;0.0439014591208751;93719!|ontology_enrichment_celltype=CL:0000542!1.04e-10!13;CL:0000051!1.04e-10!13;CL:0000838!1.50e-09!12;CL:0002031!5.48e-09!25;CL:0002242!1.17e-08!16;CL:0000084!2.60e-08!11;CL:0000827!2.60e-08!11;CL:0000738!3.92e-08!17;CL:0002087!3.92e-08!17;CL:0000988!6.34e-08!32;CL:0002032!6.34e-08!32;CL:0000037!6.34e-08!32;CL:0000566!6.34e-08!32;CL:0000837!6.34e-08!32|ontology_enrichment_disease=|ontology_enrichment_uberon=|tfbs_overrepresentation_for_novel_motifs=0.422253,0.00438678,0.0421294,1.31652,0.357717,0.539901,0.370039,0.473698,0.318766,0.0139704,0.311617,0.353689,0.158867,0.122119,0.206481,0,0.242789,0.855761,0.0580583,0.369002,1.26976,0.0682832,0.385701,0.353993,0.385766,0.841161,0.0517216,0.081699,0.47341,0.244187,0.261652,0.317094,0.0132715,0.0944261,0.0180326,0.174185,0.01186,1.1687,0.702449,0.0322356,0.348026,0.0777669,0.708368,1.78364,0.00822455,0.0622442,0.189134,0.0888774,0.705951,0.256647,0.230631,0.152832,0.224074,0.430267,0.44481,0.125986,0.808842,0.336624,0.0453441,0.124877,0.301892,0.158445,0.196652,0.222903,0.412635,0.251098,0.562061,0.88291,0.298379,0.744997,0.0364155,0.497133,0.00478218,0.473077,0.0995427,0.00969408,0.317894,0.536293,0.289046,0.131982,0.501936,0.25509,1.48301,0.931479,0.37768,2.25117e-06,0.911882,0.244615,0.561427,1.03797,0.624114,0.381683,0.872284,1.28047,0.0435786,0.387314,0.285674,0.329091,0.189298,0.100195,0.802154,0.31688,0.415858,0.231041,0.651622,0.0775753,0.272737,0.293579,0.0339046,0.0319054,0.182167,0.417326,0.133001,0.096109,0.630454,0.343746,0.000641519,0.0681828,0.243704,0.303302,0.477668,0.600829,0.138324,0.18131,0.679524,0.291798,0.38126,0.32171,0.560724,0.194855,1.83122,0.493567,0.534808,0.416208,0.649958,0.200455,0.767339,0.569198,0.605717,1.39723,1.00731,0.566216,0.875066,0.325124,0.22586,0.0779644,1.06341,1.35822,0.443919,0.015237,0.00737242,5.22166e-05,1.10233,0.633467,0.132996,0.500669,0.153427,0.0203206,0.417354,0.0536966,0.61423,0.376993,0.29213,0.0476152,0.635863,0.804679,0.153569,0.351552,9.79373e-05|tfbs_overrepresentation_jaspar=MA0003.1;3.53636e-07,MA0004.1;0.0668523,MA0006.1;0.0171128,MA0007.1;0.219791,MA0009.1;0.337492,MA0014.1;0.000355467,MA0017.1;0.241082,MA0019.1;0.593071,MA0024.1;0.303927,MA0025.1;0.530879,MA0027.1;1.89129,MA0028.1;0.0191049,MA0029.1;0.783816,MA0030.1;0.292547,MA0031.1;0.266391,MA0038.1;0.137249,MA0040.1;0.347276,MA0041.1;2.44317,MA0042.1;2.34196,MA0043.1;0.415031,MA0046.1;0.365786,MA0048.1;0.00440176,MA0050.1;0.283608,MA0051.1;0.862788,MA0052.1;0.353618,MA0055.1;0.0825613,MA0056.1;0,MA0057.1;0.013305,MA0058.1;0.0341303,MA0059.1;0.0376694,MA0060.1;0.00607994,MA0061.1;0.00934368,MA0063.1;0,MA0066.1;0.131108,MA0067.1;0.629308,MA0068.1;0.27724,MA0069.1;0.353886,MA0070.1;0.346258,MA0071.1;0.592313,MA0072.1;1.61494,MA0073.1;0.0248617,MA0074.1;0.111914,MA0076.1;0.112845,MA0077.1;0.32285,MA0078.1;0.161775,MA0081.1;0.688174,MA0083.1;2.79994,MA0084.1;0.934141,MA0087.1;0.379309,MA0088.1;0.0139193,MA0089.1;0,MA0090.1;0.439111,MA0091.1;0.0722516,MA0092.1;0.198903,MA0093.1;0.0914627,MA0095.1;0,MA0098.1;0,MA0100.1;0.106017,MA0101.1;0.157214,MA0103.1;0.106012,MA0105.1;0.0102159,MA0106.1;0.166496,MA0107.1;0.0234917,MA0108.2;0.629361,MA0109.1;0,MA0111.1;1.2326,MA0113.1;0.149628,MA0114.1;0.0460994,MA0115.1;0.417336,MA0116.1;0.0778306,MA0117.1;0.390961,MA0119.1;0.0405474,MA0122.1;0.407133,MA0124.1;0.581749,MA0125.1;0.516802,MA0130.1;0,MA0131.1;0.202517,MA0132.1;0,MA0133.1;0,MA0135.1;1.13195,MA0136.1;0.12239,MA0139.1;0.02135,MA0140.1;0.105959,MA0141.1;0.122526,MA0142.1;0.255956,MA0143.1;0.159321,MA0144.1;1.02378,MA0145.1;0.0177168,MA0146.1;0.000858257,MA0147.1;0.0110656,MA0148.1;0.544719,MA0149.1;0.0420811,MA0062.2;0.0017104,MA0035.2;0.350941,MA0039.2;6.69099e-05,MA0138.2;0.197313,MA0002.2;0.156814,MA0137.2;0.5305,MA0104.2;0.00485556,MA0047.2;0.424612,MA0112.2;0.000133633,MA0065.2;0.0436434,MA0150.1;0.219664,MA0151.1;0,MA0152.1;0.424765,MA0153.1;1.16208,MA0154.1;0.0453834,MA0155.1;0.0085214,MA0156.1;0.112124,MA0157.1;0.233393,MA0158.1;0,MA0159.1;0.0603505,MA0160.1;0.0748272,MA0161.1;0,MA0162.1;1.02543e-06,MA0163.1;8.87159e-06,MA0164.1;1.26733,MA0080.2;0.0236909,MA0018.2;0.127843,MA0099.2;0.193216,MA0079.2;5.31248e-13,MA0102.2;0.984244,MA0258.1;0.1126,MA0259.1;0.0485446,MA0442.1;0}}
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|gostat_on_MCL_coexpression=GO:0004540;ribonuclease activity;0.0124910973538596;93719!GO:0004518;nuclease activity;0.0145729469128362;93719!GO:0016788;hydrolase activity, acting on ester bonds;0.0439014591208751;93719!
}}

Latest revision as of 14:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128113787..128113796,-p@chr10:128113787..128113796
-
Mm9::chr10:46225439..46225441,-p@chr10:46225439..46225441
-
Mm9::chr10:61422349..61422356,+p@chr10:61422349..61422356
+
Mm9::chr10:62224425..62224431,+p@chr10:62224425..62224431
+
Mm9::chr13:118836100..118836109,+p@chr13:118836100..118836109
+
Mm9::chr14:52473442..52473447,+p1@Ear6
p1@Ear7
Mm9::chr15:76168002..76168027,+p1@ENSMUST00000074205
Mm9::chr15:77338698..77338700,+p1@Apol11a
Mm9::chr15:79164786..79164787,-p@chr15:79164786..79164787
-
Mm9::chr16:32822173..32822174,+p@chr16:32822173..32822174
+
Mm9::chr16:58555862..58555865,-p@chr16:58555862..58555865
-
Mm9::chr17:12285576..12285577,+p@chr17:12285576..12285577
+
Mm9::chr17:74886567..74886581,+p1@ENSMUST00000166175
Mm9::chr18:30768709..30768710,-p@chr18:30768709..30768710
-
Mm9::chr18:66708545..66708551,+p@chr18:66708545..66708551
+
Mm9::chr1:136005913..136005920,+p1@Gm8618
Mm9::chr1:192441351..192441352,-p@chr1:192441351..192441352
-
Mm9::chr1:73400956..73400959,-p@chr1:73400956..73400959
-
Mm9::chr2:147341716..147341717,+p@chr2:147341716..147341717
+
Mm9::chr4:105250900..105250907,+p1@ENSMUST00000121621
Mm9::chr4:105466778..105466786,+p1@ENSMUST00000119740
Mm9::chr4:134984627..134984636,-p@chr4:134984627..134984636
-
Mm9::chr5:67844705..67844708,+p@chr5:67844705..67844708
+
Mm9::chr6:107388309..107388310,-p@chr6:107388309..107388310
-
Mm9::chr6:13411995..13411996,-p@chr6:13411995..13411996
-
Mm9::chr7:109189797..109189803,+p@chr7:109189797..109189803
+
Mm9::chr7:34822489..34822490,-p1@ENSMUST00000117861
Mm9::chr7:82653484..82653491,-p@chr7:82653484..82653491
-
Mm9::chr8:119025600..119025605,+p@chr8:119025600..119025605
+
Mm9::chr8:25929441..25929443,+p@chr8:25929441..25929443
+
Mm9::chr8:26771946..26771952,-p@chr8:26771946..26771952
-
Mm9::chr9:59504911..59504929,+p@chr9:59504911..59504929
+
Mm9::chr9:72022794..72022811,-p1@Gm7866
Mm9::chrX:134243545..134243548,+p@chrX:134243545..134243548
+


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:0004540ribonuclease activity0.0124910973538596
GO:0004518nuclease activity0.0145729469128362
GO:0016788hydrolase activity, acting on ester bonds0.0439014591208751



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><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)
MA0003.13.53636e-07
MA0004.10.0668523
MA0006.10.0171128
MA0007.10.219791
MA0009.10.337492
MA0014.10.000355467
MA0017.10.241082
MA0019.10.593071
MA0024.10.303927
MA0025.10.530879
MA0027.11.89129
MA0028.10.0191049
MA0029.10.783816
MA0030.10.292547
MA0031.10.266391
MA0038.10.137249
MA0040.10.347276
MA0041.12.44317
MA0042.12.34196
MA0043.10.415031
MA0046.10.365786
MA0048.10.00440176
MA0050.10.283608
MA0051.10.862788
MA0052.10.353618
MA0055.10.0825613
MA0056.10
MA0057.10.013305
MA0058.10.0341303
MA0059.10.0376694
MA0060.10.00607994
MA0061.10.00934368
MA0063.10
MA0066.10.131108
MA0067.10.629308
MA0068.10.27724
MA0069.10.353886
MA0070.10.346258
MA0071.10.592313
MA0072.11.61494
MA0073.10.0248617
MA0074.10.111914
MA0076.10.112845
MA0077.10.32285
MA0078.10.161775
MA0081.10.688174
MA0083.12.79994
MA0084.10.934141
MA0087.10.379309
MA0088.10.0139193
MA0089.10
MA0090.10.439111
MA0091.10.0722516
MA0092.10.198903
MA0093.10.0914627
MA0095.10
MA0098.10
MA0100.10.106017
MA0101.10.157214
MA0103.10.106012
MA0105.10.0102159
MA0106.10.166496
MA0107.10.0234917
MA0108.20.629361
MA0109.10
MA0111.11.2326
MA0113.10.149628
MA0114.10.0460994
MA0115.10.417336
MA0116.10.0778306
MA0117.10.390961
MA0119.10.0405474
MA0122.10.407133
MA0124.10.581749
MA0125.10.516802
MA0130.10
MA0131.10.202517
MA0132.10
MA0133.10
MA0135.11.13195
MA0136.10.12239
MA0139.10.02135
MA0140.10.105959
MA0141.10.122526
MA0142.10.255956
MA0143.10.159321
MA0144.11.02378
MA0145.10.0177168
MA0146.10.000858257
MA0147.10.0110656
MA0148.10.544719
MA0149.10.0420811
MA0062.20.0017104
MA0035.20.350941
MA0039.26.69099e-05
MA0138.20.197313
MA0002.20.156814
MA0137.20.5305
MA0104.20.00485556
MA0047.20.424612
MA0112.20.000133633
MA0065.20.0436434
MA0150.10.219664
MA0151.10
MA0152.10.424765
MA0153.11.16208
MA0154.10.0453834
MA0155.10.0085214
MA0156.10.112124
MA0157.10.233393
MA0158.10
MA0159.10.0603505
MA0160.10.0748272
MA0161.10
MA0162.11.02543e-06
MA0163.18.87159e-06
MA0164.11.26733
MA0080.20.0236909
MA0018.20.127843
MA0099.20.193216
MA0079.25.31248e-13
MA0102.20.984244
MA0258.10.1126
MA0259.10.0485446
MA0442.10
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