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MCL coexpression mm9:111: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,2.00716996883246e-05,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.269611904680974,0.705849007768206,0.568027496916124,0.690077164971779,0.701761516724823,0.19361921200471,0,0,0,0,0,0,0,0,0,0,0.485055258042761,0,0,0,0,0,0,0.0585992004952979,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0185396973061051,0,0,0,0,0.347282918949282,0,0,0,0.0303753718016005,0.093833775061694,0.098514232005992,0.270233464711444,1.10276246678937,0.389312948186366,0.889731292066444,0.737645104998068,0.40827191965534,0.400619706372722,0.353297106602279,0.939805636268302,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0962007932069227,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0242538736058389,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0836412737508128,0.155257708002722,0,0,0
|gostat_on_MCL_coexpression=GO:0044255;cellular lipid metabolic process;0.00776432066695159;76893,18618,16816,13072,14377,11430!GO:0006629;lipid metabolic process;0.00854523667889149;76893,18618,16816,13072,14377,11430!GO:0019842;vitamin binding;0.0242127072511119;209692,110095,17850!GO:0005739;mitochondrion;0.0242127072511119;104776,209692,18618,13072,17850,11430!GO:0016866;intramolecular transferase activity;0.0242127072511119;20181,17850!GO:0006073;glucan metabolic process;0.0242127072511119;110095,14377!GO:0005977;glycogen metabolic process;0.0242127072511119;110095,14377!GO:0006112;energy reserve metabolic process;0.0242127072511119;110095,14377!GO:0016903;oxidoreductase activity, acting on the aldehyde or oxo group of donors;0.0242127072511119;104776,209692!GO:0048037;cofactor binding;0.0242127072511119;209692,110095,11430!GO:0006091;generation of precursor metabolites and energy;0.0242127072511119;110095,13072,14377,11430!GO:0004608;phosphatidylethanolamine N-methyltransferase activity;0.0242127072511119;18618!GO:0051156;glucose 6-phosphate metabolic process;0.0242127072511119;14377!GO:0004491;methylmalonate-semialdehyde dehydrogenase (acylating) activity;0.0242127072511119;104776!GO:0046415;urate metabolic process;0.0242127072511119;14377!GO:0001977;renal regulation of blood volume;0.0242127072511119;13072!GO:0002017;aldosterone mediated regulation of blood volume;0.0242127072511119;13072!GO:0004494;methylmalonyl-CoA mutase activity;0.0242127072511119;17850!GO:0004507;steroid 11-beta-monooxygenase activity;0.0242127072511119;13072!GO:0006307;DNA dealkylation;0.0242127072511119;17314!GO:0006705;mineralocorticoid biosynthetic process;0.0242127072511119;13072!GO:0032342;aldosterone biosynthetic process;0.0242127072511119;13072!GO:0044264;cellular polysaccharide metabolic process;0.0254827065698553;110095,14377!GO:0005976;polysaccharide metabolic process;0.0254827065698553;110095,14377!GO:0032341;aldosterone metabolic process;0.0332742320185638;13072!GO:0003908;methylated-DNA-[protein]-cysteine S-methyltransferase activity;0.0332742320185638;17314!GO:0004607;phosphatidylcholine-sterol O-acyltransferase activity;0.0332742320185638;16816!GO:0008184;glycogen phosphorylase activity;0.0332742320185638;110095!GO:0008212;mineralocorticoid metabolic process;0.0332742320185638;13072!GO:0004346;glucose-6-phosphatase activity;0.0332742320185638;14377!GO:0004591;oxoglutarate dehydrogenase (succinyl-transferring) activity;0.0332742320185638;209692!GO:0047783;corticosterone 18-monooxygenase activity;0.0332742320185638;13072!GO:0008610;lipid biosynthetic process;0.0335243363309589;76893,18618,13072!GO:0015980;energy derivation by oxidation of organic compounds;0.0342196772509301;110095,14377!GO:0044275;cellular carbohydrate catabolic process;0.0342196772509301;209692,14377!GO:0044262;cellular carbohydrate metabolic process;0.0353679485546969;209692,110095,14377!GO:0006066;alcohol metabolic process;0.0368177256429547;209692,16816,14377!GO:0016052;carbohydrate catabolic process;0.0374016203066091;209692,14377!GO:0015760;glucose-6-phosphate transport;0.0399072050714338;14377!GO:0030976;thiamin pyrophosphate binding;0.0399072050714338;209692!GO:0005980;glycogen catabolic process;0.0472715222525254;14377!GO:0009251;glucan catabolic process;0.0472715222525254;14377!GO:0003071;renal regulation of systemic arterial blood pressure;0.0472715222525254;13072!GO:0004645;phosphorylase activity;0.0472715222525254;110095!GO:0003997;acyl-CoA oxidase activity;0.0472715222525254;11430!
|gostat_on_MCL_coexpression=GO:0044255;cellular lipid metabolic process;0.00776432066695159;76893,18618,16816,13072,14377,11430!GO:0006629;lipid metabolic process;0.00854523667889149;76893,18618,16816,13072,14377,11430!GO:0019842;vitamin binding;0.0242127072511119;209692,110095,17850!GO:0005739;mitochondrion;0.0242127072511119;104776,209692,18618,13072,17850,11430!GO:0016866;intramolecular transferase activity;0.0242127072511119;20181,17850!GO:0006073;glucan metabolic process;0.0242127072511119;110095,14377!GO:0005977;glycogen metabolic process;0.0242127072511119;110095,14377!GO:0006112;energy reserve metabolic process;0.0242127072511119;110095,14377!GO:0016903;oxidoreductase activity, acting on the aldehyde or oxo group of donors;0.0242127072511119;104776,209692!GO:0048037;cofactor binding;0.0242127072511119;209692,110095,11430!GO:0006091;generation of precursor metabolites and energy;0.0242127072511119;110095,13072,14377,11430!GO:0004608;phosphatidylethanolamine N-methyltransferase activity;0.0242127072511119;18618!GO:0051156;glucose 6-phosphate metabolic process;0.0242127072511119;14377!GO:0004491;methylmalonate-semialdehyde dehydrogenase (acylating) activity;0.0242127072511119;104776!GO:0046415;urate metabolic process;0.0242127072511119;14377!GO:0001977;renal regulation of blood volume;0.0242127072511119;13072!GO:0002017;aldosterone mediated regulation of blood volume;0.0242127072511119;13072!GO:0004494;methylmalonyl-CoA mutase activity;0.0242127072511119;17850!GO:0004507;steroid 11-beta-monooxygenase activity;0.0242127072511119;13072!GO:0006307;DNA dealkylation;0.0242127072511119;17314!GO:0006705;mineralocorticoid biosynthetic process;0.0242127072511119;13072!GO:0032342;aldosterone biosynthetic process;0.0242127072511119;13072!GO:0044264;cellular polysaccharide metabolic process;0.0254827065698553;110095,14377!GO:0005976;polysaccharide metabolic process;0.0254827065698553;110095,14377!GO:0032341;aldosterone metabolic process;0.0332742320185638;13072!GO:0003908;methylated-DNA-[protein]-cysteine S-methyltransferase activity;0.0332742320185638;17314!GO:0004607;phosphatidylcholine-sterol O-acyltransferase activity;0.0332742320185638;16816!GO:0008184;glycogen phosphorylase activity;0.0332742320185638;110095!GO:0008212;mineralocorticoid metabolic process;0.0332742320185638;13072!GO:0004346;glucose-6-phosphatase activity;0.0332742320185638;14377!GO:0004591;oxoglutarate dehydrogenase (succinyl-transferring) activity;0.0332742320185638;209692!GO:0047783;corticosterone 18-monooxygenase activity;0.0332742320185638;13072!GO:0008610;lipid biosynthetic process;0.0335243363309589;76893,18618,13072!GO:0015980;energy derivation by oxidation of organic compounds;0.0342196772509301;110095,14377!GO:0044275;cellular carbohydrate catabolic process;0.0342196772509301;209692,14377!GO:0044262;cellular carbohydrate metabolic process;0.0353679485546969;209692,110095,14377!GO:0006066;alcohol metabolic process;0.0368177256429547;209692,16816,14377!GO:0016052;carbohydrate catabolic process;0.0374016203066091;209692,14377!GO:0015760;glucose-6-phosphate transport;0.0399072050714338;14377!GO:0030976;thiamin pyrophosphate binding;0.0399072050714338;209692!GO:0005980;glycogen catabolic process;0.0472715222525254;14377!GO:0009251;glucan catabolic process;0.0472715222525254;14377!GO:0003071;renal regulation of systemic arterial blood pressure;0.0472715222525254;13072!GO:0004645;phosphorylase activity;0.0472715222525254;110095!GO:0003997;acyl-CoA oxidase activity;0.0472715222525254;11430!
}}
}}

Revision as of 12:36, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127706229..127706250,+p@chr10:127706229..127706250
+
Mm9::chr10:127706257..127706269,+p@chr10:127706257..127706269
+
Mm9::chr10:24635897..24635907,-p@chr10:24635897..24635907
-
Mm9::chr10:74892792..74892802,+p@chr10:74892792..74892802
+
Mm9::chr10:75398971..75399004,+p@chr10:75398971..75399004
+
Mm9::chr10:76548087..76548106,-p@chr10:76548087..76548106
-
Mm9::chr10:89109768..89109780,-p@chr10:89109768..89109780
-
Mm9::chr11:101229023..101229038,+p1@G6pc
Mm9::chr11:108268594..108268621,+p@chr11:108268594..108268621
+
Mm9::chr11:116035738..116035759,-p@chr11:116035738..116035759
-
Mm9::chr11:116039483..116039495,-p@chr11:116039483..116039495
-
Mm9::chr11:116059987..116059991,-p4@Acox1
Mm9::chr11:59797001..59797024,-p4@Pemt
Mm9::chr11:7097653..7097659,+p6@Igfbp1
Mm9::chr11:75228562..75228579,-p5@Serpinf1
Mm9::chr11:75229127..75229150,-p4@Serpinf1
Mm9::chr11:78313973..78313987,+p4@Vtn
Mm9::chr11:78315675..78315696,+p@chr11:78315675..78315696
+
Mm9::chr12:105006238..105006257,-p@chr12:105006238..105006257
-
Mm9::chr12:105652082..105652089,+p@chr12:105652082..105652089
+
Mm9::chr12:110089332..110089339,+p1@Slc25a47
Mm9::chr12:71328417..71328441,-p3@Pygl
Mm9::chr12:82057018..82057044,-p@chr12:82057018..82057044
-
Mm9::chr12:82059070..82059089,-p@chr12:82059070..82059089
-
Mm9::chr12:85777422..85777462,-p@chr12:85777422..85777462
-
Mm9::chr13:36818465..36818489,-p@chr13:36818465..36818489
-
Mm9::chr13:41280158..41280170,-p@chr13:41280158..41280170
-
Mm9::chr13:41290161..41290172,-p@chr13:41290161..41290172
-
Mm9::chr14:32432220..32432229,-p@chr14:32432220..32432229
-
Mm9::chr14:41920137..41920147,+p@chr14:41920137..41920147
+
Mm9::chr14:41922807..41922810,+p@chr14:41922807..41922810
+
Mm9::chr14:41928042..41928064,+p@chr14:41928042..41928064
+
Mm9::chr14:41928151..41928172,+p@chr14:41928151..41928172
+
Mm9::chr14:41935818..41935845,-p@chr14:41935818..41935845
-
Mm9::chr14:41936105..41936117,+p@chr14:41936105..41936117
+
Mm9::chr14:70608100..70608121,-p@chr14:70608100..70608121
-
Mm9::chr14:75660501..75660542,+p@chr14:75660501..75660542
+
Mm9::chr15:101934792..101934804,+p11@Tenc1
Mm9::chr15:3201263..3201268,+p@chr15:3201263..3201268
+
Mm9::chr15:82623044..82623052,-p@chr15:82623044..82623052
-
Mm9::chr15:82623596..82623625,-p@chr15:82623596..82623625
-
Mm9::chr15:96849901..96849913,-p@chr15:96849901..96849913
-
Mm9::chr15:96849958..96849969,-p@chr15:96849958..96849969
-
Mm9::chr16:22929198..22929243,+p@chr16:22929198..22929243
+
Mm9::chr16:22939419..22939434,+p@chr16:22939419..22939434
+
Mm9::chr16:22961014..22961028,+p@chr16:22961014..22961028
+
Mm9::chr16:22961117..22961145,+p@chr16:22961117..22961145
+
Mm9::chr16:22961202..22961217,+p@chr16:22961202..22961217
+
Mm9::chr16:23079800..23079804,+p@chr16:23079800..23079804
+
Mm9::chr16:26359195..26359226,-p@chr16:26359195..26359226
-
Mm9::chr16:30260181..30260197,-p@chr16:30260181..30260197
-
Mm9::chr16:35923854..35923859,+p@chr16:35923854..35923859
+
Mm9::chr16:4829283..4829319,-p@chr16:4829283..4829319
-
Mm9::chr16:8619690..8619716,+p@chr16:8619690..8619716
+
Mm9::chr17:12588483..12588503,+p@chr17:12588483..12588503
+
Mm9::chr17:26224337..26224366,-p@chr17:26224337..26224366
-
Mm9::chr17:41074062..41074072,+p@chr17:41074062..41074072
+
Mm9::chr17:57354263..57354273,-p@chr17:57354263..57354273
-
Mm9::chr19:44086917..44086932,-p@chr19:44086917..44086932
-
Mm9::chr1:162919625..162919643,+p@chr1:162919625..162919643
+
Mm9::chr1:162927765..162927780,+p@chr1:162927765..162927780
+
Mm9::chr1:166193610..166193653,+p@chr1:166193610..166193653
+
Mm9::chr1:67219400..67219410,+p@chr1:67219400..67219410
+
Mm9::chr1:67233471..67233474,+p@chr1:67233471..67233474
+
Mm9::chr1:90109123..90109144,+p@chr1:90109123..90109144
+
Mm9::chr1:90109257..90109275,+p@chr1:90109257..90109275
+
Mm9::chr2:172980232..172980249,+p@chr2:172980232..172980249
+
Mm9::chr2:172980262..172980288,+p@chr2:172980262..172980288
+
Mm9::chr2:172982582..172982596,+p@chr2:172982582..172982596
+
Mm9::chr2:172983490..172983506,+p@chr2:172983490..172983506
+
Mm9::chr2:27532912..27532923,+p9@Rxra
Mm9::chr2:44776173..44776198,-p@chr2:44776173..44776198
-
Mm9::chr2:4849704..4849713,+p@chr2:4849704..4849713
+
Mm9::chr2:4857036..4857072,+p@chr2:4857036..4857072
+
Mm9::chr2:5846314..5846318,-p2@Dhtkd1
Mm9::chr2:91470837..91470851,-p@chr2:91470837..91470851
-
Mm9::chr3:82835919..82835954,+p@chr3:82835919..82835954
+
Mm9::chr3:95124914..95124936,+p8@Lass2
Mm9::chr4:115159849..115159881,-p@chr4:115159849..115159881
-
Mm9::chr4:49555698..49555730,-p@chr4:49555698..49555730
-
Mm9::chr4:58891953..58891965,-p@chr4:58891953..58891965
-
Mm9::chr5:128180989..128181000,+p@chr5:128180989..128181000
+
Mm9::chr5:136209372..136209413,+p5@Por
Mm9::chr5:136209418..136209433,+p7@Por
Mm9::chr5:35384936..35384983,+p@chr5:35384936..35384983
+
Mm9::chr5:90890734..90890776,+p@chr5:90890734..90890776
+
Mm9::chr5:90898608..90898643,+p@chr5:90898608..90898643
+
Mm9::chr5:90953839..90953865,+p@chr5:90953839..90953865
+
Mm9::chr6:90509350..90509357,+p@chr6:90509350..90509357
+
Mm9::chr7:108494482..108494491,+p@chr7:108494482..108494491
+
Mm9::chr7:147956040..147956100,+p@chr7:147956040..147956100
+
Mm9::chr8:108463802..108463813,-p@chr8:108463802..108463813
-
Mm9::chr8:108463960..108463997,-p@chr8:108463960..108463997
-
Mm9::chr8:108466262..108466303,-p@chr8:108466262..108466303
-
Mm9::chr8:108467177..108467188,-p@chr8:108467177..108467188
-
Mm9::chr8:10892047..10892071,-p@chr8:10892047..10892071
-
Mm9::chr8:112522789..112522794,+p@chr8:112522789..112522794
+
Mm9::chr8:127083208..127083217,-p@chr8:127083208..127083217
-
Mm9::chr8:127083219..127083229,-p@chr8:127083219..127083229
-
Mm9::chr8:127088246..127088261,-p@chr8:127088246..127088261
-
Mm9::chr9:107554554..107554565,-p@chr9:107554554..107554565
-
Mm9::chr9:110264937..110264974,+p@chr9:110264937..110264974
+
Mm9::chr9:121823798..121823819,-p@chr9:121823798..121823819
-
Mm9::chr9:46078347..46078361,+p@chr9:46078347..46078361
+
Mm9::chr9:83934922..83934926,+p@chr9:83934922..83934926
+
Mm9::chr9:83946779..83946780,+p@chr9:83946779..83946780
+
Mm9::chr9:95460455..95460464,+p@chr9:95460455..95460464
+
Mm9::chrX:98579969..98579982,+p@chrX:98579969..98579982
+


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:0044255cellular lipid metabolic process0.00776432066695159
GO:0006629lipid metabolic process0.00854523667889149
GO:0019842vitamin binding0.0242127072511119
GO:0005739mitochondrion0.0242127072511119
GO:0016866intramolecular transferase activity0.0242127072511119
GO:0006073glucan metabolic process0.0242127072511119
GO:0005977glycogen metabolic process0.0242127072511119
GO:0006112energy reserve metabolic process0.0242127072511119
GO:0016903oxidoreductase activity, acting on the aldehyde or oxo group of donors0.0242127072511119
GO:0048037cofactor binding0.0242127072511119
GO:0006091generation of precursor metabolites and energy0.0242127072511119
GO:0004608phosphatidylethanolamine N-methyltransferase activity0.0242127072511119
GO:0051156glucose 6-phosphate metabolic process0.0242127072511119
GO:0004491methylmalonate-semialdehyde dehydrogenase (acylating) activity0.0242127072511119
GO:0046415urate metabolic process0.0242127072511119
GO:0001977renal regulation of blood volume0.0242127072511119
GO:0002017aldosterone mediated regulation of blood volume0.0242127072511119
GO:0004494methylmalonyl-CoA mutase activity0.0242127072511119
GO:0004507steroid 11-beta-monooxygenase activity0.0242127072511119
GO:0006307DNA dealkylation0.0242127072511119
GO:0006705mineralocorticoid biosynthetic process0.0242127072511119
GO:0032342aldosterone biosynthetic process0.0242127072511119
GO:0044264cellular polysaccharide metabolic process0.0254827065698553
GO:0005976polysaccharide metabolic process0.0254827065698553
GO:0032341aldosterone metabolic process0.0332742320185638
GO:0003908methylated-DNA-[protein]-cysteine S-methyltransferase activity0.0332742320185638
GO:0004607phosphatidylcholine-sterol O-acyltransferase activity0.0332742320185638
GO:0008184glycogen phosphorylase activity0.0332742320185638
GO:0008212mineralocorticoid metabolic process0.0332742320185638
GO:0004346glucose-6-phosphatase activity0.0332742320185638
GO:0004591oxoglutarate dehydrogenase (succinyl-transferring) activity0.0332742320185638
GO:0047783corticosterone 18-monooxygenase activity0.0332742320185638
GO:0008610lipid biosynthetic process0.0335243363309589
GO:0015980energy derivation by oxidation of organic compounds0.0342196772509301
GO:0044275cellular carbohydrate catabolic process0.0342196772509301
GO:0044262cellular carbohydrate metabolic process0.0353679485546969
GO:0006066alcohol metabolic process0.0368177256429547
GO:0016052carbohydrate catabolic process0.0374016203066091
GO:0015760glucose-6-phosphate transport0.0399072050714338
GO:0030976thiamin pyrophosphate binding0.0399072050714338
GO:0005980glycogen catabolic process0.0472715222525254
GO:0009251glucan catabolic process0.0472715222525254
GO:0003071renal regulation of systemic arterial blood pressure0.0472715222525254
GO:0004645phosphorylase activity0.0472715222525254
GO:0003997acyl-CoA oxidase activity0.0472715222525254



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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)

{{{tfbs_overrepresentation_jaspar}}}

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