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MCL coexpression mm9:246: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0006307;DNA dealkylation;0.0203768617898006;17314!GO:0003908;methylated-DNA-[protein]-cysteine S-methyltransferase activity;0.0203768617898006;17314!GO:0042448;progesterone metabolic process;0.0203768617898006;11576!GO:0004566;beta-glucuronidase activity;0.0203768617898006;11576!GO:0016151;nickel ion binding;0.0217335329410059;11576!GO:0008172;S-methyltransferase activity;0.0271624509120334;17314!GO:0001542;ovulation from ovarian follicle;0.0339419029262237;11576!GO:0030728;ovulation;0.0339419029262237;11576!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!7.31e-09!22;UBERON:0007499!7.31e-09!22;UBERON:0006925!7.31e-09!22;UBERON:0009497!7.31e-09!22;UBERON:0000015!7.31e-09!22;UBERON:0002423!7.31e-09!22;UBERON:0006235!7.31e-09!22;UBERON:0008835!7.31e-09!22;UBERON:0003894!7.31e-09!22;UBERON:0004161!7.31e-09!22;UBERON:0008836!7.31e-09!22;UBERON:0009854!2.49e-08!23;UBERON:0009856!2.49e-08!23;UBERON:0002365!2.14e-07!25;UBERON:0002330!2.14e-07!25
|tfbs_overrepresentation_for_novel_motifs=0.0508136,0.0499403,0.0421294,0.236371,0.181931,0.253392,0.115611,0.292371,0.318766,0.0013316,0.311617,1.181,0.0227086,0.386956,0.206481,0,0.242789,0.338711,0.0180096,0.369002,0.30361,0.125136,0.121635,1.23533,0.170342,0.137293,0.232042,0.278895,0.25179,0.244187,0.0755327,0.317094,0.0632527,0.0944261,0.0813985,0.074259,0.01186,0.348826,0.127365,0.00589464,0.348026,0.0777669,0.170978,0.663569,0.0349782,0.0622442,0.189134,0.0888774,0.278663,0.0246048,0.230631,0.46489,0.125124,0.430267,0.44481,0.125986,0.112306,0.336624,0.35402,0.124877,0.301892,0.478843,0.196652,0.222903,0.412635,0.251098,0.562061,0.88291,0.298379,0.744997,0.0364155,0.497133,0.000108948,2.07151,0.00182819,0.00969408,0.317894,0.536293,0.289046,0.311116,1.02071,0.25509,0.157582,0.0205525,0.37768,2.25117e-06,0.147257,0.0670085,0.192291,1.03797,0.624114,0.381683,0.872284,0.61726,0.00846199,0.218716,0.154303,0.329091,0.189298,0.184302,0.0118716,0.31688,0.415858,0.231041,0.651622,0.0775753,0.272737,0.087018,0.0339046,0.0319054,0.182167,0.417326,0.313137,0.318311,0.630454,0.173701,0.000108232,0.0681828,0.243704,0.515697,1.20167,0.600829,1.36642,1.62095,1.62743,0.291798,0.119921,0.32171,0.560724,0.627985,1.03789,2.35368,0.534808,0.133513,0.649958,0.0310715,0.19858,0.26965,0.605717,1.39723,1.00731,0.566216,0.145218,0.325124,0.641177,0.0779644,0.191141,1.35822,0.201136,0.0708744,0.00737242,5.22166e-05,1.10233,0.0379768,0.132996,1.25088,0.153427,0.0203206,1.12713,0.0536966,2.53369,0.376993,0.793957,0.0476152,0.223599,0.128895,0.153569,2.33909,0.000395124
|tfbs_overrepresentation_jaspar=MA0003.1;9.15985e-06,MA0004.1;0.509985,MA0006.1;0.0779732,MA0007.1;0.478533,MA0009.1;0.337492,MA0014.1;1.61839e-05,MA0017.1;0.455966,MA0019.1;0.205515,MA0024.1;0.303927,MA0025.1;0.530879,MA0027.1;1.89129,MA0028.1;0.215634,MA0029.1;0.287662,MA0030.1;0.794903,MA0031.1;1.351,MA0038.1;0.425709,MA0040.1;1.64184,MA0041.1;1.42498,MA0042.1;0.036061,MA0043.1;0.415031,MA0046.1;1.70652,MA0048.1;0.187496,MA0050.1;0.59417,MA0051.1;0.142335,MA0052.1;0.353618,MA0055.1;0.294261,MA0056.1;0,MA0057.1;0.00324684,MA0058.1;0.321312,MA0059.1;1.3849,MA0060.1;0.00607994,MA0061.1;0.270316,MA0063.1;0,MA0066.1;0.131108,MA0067.1;0.629308,MA0068.1;0.0408448,MA0069.1;0.353886,MA0070.1;2.47689,MA0071.1;0.0830235,MA0072.1;0.339628,MA0073.1;9.44858e-08,MA0074.1;1.19783,MA0076.1;0.507205,MA0077.1;0.32285,MA0078.1;0.487084,MA0081.1;0.387588,MA0083.1;1.06501,MA0084.1;0.934141,MA0087.1;0.988345,MA0088.1;0.00427315,MA0089.1;0,MA0090.1;0.439111,MA0091.1;0.538057,MA0092.1;0.198903,MA0093.1;0.708921,MA0095.1;0,MA0098.1;0,MA0100.1;0.106017,MA0101.1;0.646174,MA0103.1;0.106012,MA0105.1;0.0102159,MA0106.1;0.166496,MA0107.1;0.468235,MA0108.2;0.220837,MA0109.1;0,MA0111.1;1.2326,MA0113.1;0.149628,MA0114.1;0.70656,MA0115.1;0.417336,MA0116.1;0.0778306,MA0117.1;0.390961,MA0119.1;0.361635,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;1.26608,MA0139.1;0.00361073,MA0140.1;0.701655,MA0141.1;0.538535,MA0142.1;0.255956,MA0143.1;0.159321,MA0144.1;1.375,MA0145.1;0.0177168,MA0146.1;4.07804e-07,MA0147.1;0.147758,MA0148.1;1.92073,MA0149.1;0.0420811,MA0062.2;0.188076,MA0035.2;1.17405,MA0039.2;6.69099e-05,MA0138.2;0.197313,MA0002.2;0.289722,MA0137.2;0.84428,MA0104.2;0.0828464,MA0047.2;1.96098,MA0112.2;0.00121577,MA0065.2;0.0887193,MA0150.1;0.826816,MA0151.1;0,MA0152.1;0.424765,MA0153.1;2.02524,MA0154.1;0.181499,MA0155.1;0.0085214,MA0156.1;0.807998,MA0157.1;0.658826,MA0158.1;0,MA0159.1;0.0603505,MA0160.1;0.0748272,MA0161.1;0,MA0162.1;1.43114e-05,MA0163.1;8.87159e-06,MA0164.1;0.122585,MA0080.2;1.11024,MA0018.2;0.401707,MA0099.2;0.563653,MA0079.2;2.29547e-11,MA0102.2;0.984244,MA0258.1;0.00749991,MA0259.1;0.134189,MA0442.1;0
}}

Latest revision as of 14:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:67599527..67599530,-p9@Arid5b
Mm9::chr14:51571927..51571931,+p@chr14:51571927..51571931
+
Mm9::chr15:58761392..58761395,-p@chr15:58761392..58761395
-
Mm9::chr15:6385674..6385683,+p@chr15:6385674..6385683
+
Mm9::chr17:35184684..35184688,-p@chr17:35184684..35184688
-
Mm9::chr19:6121857..6121892,-p4@Snx15
Mm9::chr5:90919755..90919770,+p1@Afp
Mm9::chr5:90920714..90920745,+p@chr5:90920714..90920745
+
Mm9::chr5:90921747..90921765,-p@chr5:90921747..90921765
-
Mm9::chr5:90921782..90921791,-p@chr5:90921782..90921791
-
Mm9::chr5:90925067..90925149,+p@chr5:90925067..90925149
+
Mm9::chr5:90927321..90927338,-p@chr5:90927321..90927338
-
Mm9::chr5:90927353..90927393,-p@chr5:90927353..90927393
-
Mm9::chr5:90930545..90930559,-p@chr5:90930545..90930559
-
Mm9::chr5:90933383..90933405,-p@chr5:90933383..90933405
-
Mm9::chr5:90933976..90933991,+p@chr5:90933976..90933991
+
Mm9::chr5:90933992..90934062,+p@chr5:90933992..90934062
+
Mm9::chr5:90933996..90934004,-p@chr5:90933996..90934004
-
Mm9::chr5:90935541..90935550,+p@chr5:90935541..90935550
+
Mm9::chr5:90935575..90935589,+p@chr5:90935575..90935589
+
Mm9::chr5:90935583..90935615,-p@chr5:90935583..90935615
-
Mm9::chr5:90935625..90935633,-p@chr5:90935625..90935633
-
Mm9::chr5:90935626..90935630,+p@chr5:90935626..90935630
+
Mm9::chr5:90935665..90935691,+p@chr5:90935665..90935691
+
Mm9::chr5:90935726..90935748,-p@chr5:90935726..90935748
-
Mm9::chr5:90936870..90936883,+p@chr5:90936870..90936883
+
Mm9::chr5:90936896..90936923,+p@chr5:90936896..90936923
+
Mm9::chr5:90937454..90937478,+p@chr5:90937454..90937478
+
Mm9::chr5:90937769..90937772,+p@chr5:90937769..90937772
+
Mm9::chr5:90937773..90937813,+p@chr5:90937773..90937813
+
Mm9::chr5:90937833..90937850,+p@chr5:90937833..90937850
+
Mm9::chr8:11279657..11279692,-p@chr8:11279657..11279692
-
Mm9::chr8:127093745..127093767,-p2@Agt
Mm9::chr8:70645519..70645536,-p@chr8:70645519..70645536
-


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:0006307DNA dealkylation0.0203768617898006
GO:0003908methylated-DNA-[protein]-cysteine S-methyltransferase activity0.0203768617898006
GO:0042448progesterone metabolic process0.0203768617898006
GO:0004566beta-glucuronidase activity0.0203768617898006
GO:0016151nickel ion binding0.0217335329410059
GO:0008172S-methyltransferase activity0.0271624509120334
GO:0001542ovulation from ovarian follicle0.0339419029262237
GO:0030728ovulation0.0339419029262237



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
liver7.31e-0922
epithelial sac7.31e-0922
digestive gland7.31e-0922
epithelium of foregut-midgut junction7.31e-0922
anatomical boundary7.31e-0922
hepatobiliary system7.31e-0922
foregut-midgut junction7.31e-0922
hepatic diverticulum7.31e-0922
liver primordium7.31e-0922
septum transversum7.31e-0922
liver bud7.31e-0922
digestive tract diverticulum2.49e-0823
sac2.49e-0823
exocrine gland2.14e-0725
exocrine system2.14e-0725


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)
MA0003.19.15985e-06
MA0004.10.509985
MA0006.10.0779732
MA0007.10.478533
MA0009.10.337492
MA0014.11.61839e-05
MA0017.10.455966
MA0019.10.205515
MA0024.10.303927
MA0025.10.530879
MA0027.11.89129
MA0028.10.215634
MA0029.10.287662
MA0030.10.794903
MA0031.11.351
MA0038.10.425709
MA0040.11.64184
MA0041.11.42498
MA0042.10.036061
MA0043.10.415031
MA0046.11.70652
MA0048.10.187496
MA0050.10.59417
MA0051.10.142335
MA0052.10.353618
MA0055.10.294261
MA0056.10
MA0057.10.00324684
MA0058.10.321312
MA0059.11.3849
MA0060.10.00607994
MA0061.10.270316
MA0063.10
MA0066.10.131108
MA0067.10.629308
MA0068.10.0408448
MA0069.10.353886
MA0070.12.47689
MA0071.10.0830235
MA0072.10.339628
MA0073.19.44858e-08
MA0074.11.19783
MA0076.10.507205
MA0077.10.32285
MA0078.10.487084
MA0081.10.387588
MA0083.11.06501
MA0084.10.934141
MA0087.10.988345
MA0088.10.00427315
MA0089.10
MA0090.10.439111
MA0091.10.538057
MA0092.10.198903
MA0093.10.708921
MA0095.10
MA0098.10
MA0100.10.106017
MA0101.10.646174
MA0103.10.106012
MA0105.10.0102159
MA0106.10.166496
MA0107.10.468235
MA0108.20.220837
MA0109.10
MA0111.11.2326
MA0113.10.149628
MA0114.10.70656
MA0115.10.417336
MA0116.10.0778306
MA0117.10.390961
MA0119.10.361635
MA0122.10.407133
MA0124.10.581749
MA0125.10.516802
MA0130.10
MA0131.10.202517
MA0132.10
MA0133.10
MA0135.11.13195
MA0136.11.26608
MA0139.10.00361073
MA0140.10.701655
MA0141.10.538535
MA0142.10.255956
MA0143.10.159321
MA0144.11.375
MA0145.10.0177168
MA0146.14.07804e-07
MA0147.10.147758
MA0148.11.92073
MA0149.10.0420811
MA0062.20.188076
MA0035.21.17405
MA0039.26.69099e-05
MA0138.20.197313
MA0002.20.289722
MA0137.20.84428
MA0104.20.0828464
MA0047.21.96098
MA0112.20.00121577
MA0065.20.0887193
MA0150.10.826816
MA0151.10
MA0152.10.424765
MA0153.12.02524
MA0154.10.181499
MA0155.10.0085214
MA0156.10.807998
MA0157.10.658826
MA0158.10
MA0159.10.0603505
MA0160.10.0748272
MA0161.10
MA0162.11.43114e-05
MA0163.18.87159e-06
MA0164.10.122585
MA0080.21.11024
MA0018.20.401707
MA0099.20.563653
MA0079.22.29547e-11
MA0102.20.984244
MA0258.10.00749991
MA0259.10.134189
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:246&oldid=3072245"