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MCL coexpression mm9:258: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9|coexpression_dpi_cluster_scores_mean=-0.00539841497863375,0.0161819341719261,0.00986996936121087,0.00710393309380837,0.00953187733862271,0.00617249597814657,0.00465913943247977,0.0258516825756948,0.0202215232427726,0.0116348772161552,0.00259493311653325,-0.000598224220757356,0.00633686221431996,0.0225398595657517,0.00240570430855075,0.00672313163247432,-0.00539841497863375,0.0253156928291634,0.0251157347932718,0.0208837025583807,0.120175893771516,-0.00282887416020627,-0.00224891843282722,0.0439774088006066,0.0439214100381436,0.0247327078002776,0.025063852846975,0.0292458102829395,0.0766859600169801,0.096077119568227,0.104737322361857,-0.00539841497863375,-0.00539841497863375,-0.00539841497863375,-0.00195457367636372,0.0081678026268998,0.00108601928597825,-0.000653445471266816,0.00243738768017562,-0.00539841497863375,-0.00539841497863375,-0.00539841497863375,-0.00539841497863375,0.0288159060017761,0.0306827900953299,0.026612596576471,0.0642217597400795,0.0228804942686801,0.0350027983872607,0.0469700321582528,0.0302836853133353,0.00669374731290807,-0.00329335240944788,0.020479902226755,0.0439570850103847,0.102856744204495,0.126417211408056,0.0786440259693785,-0.00539841497863375,-0.00539841497863375,-0.00539841497863375,0.0236680349692836,0.0343741971990542,0.0324755075547852,0.0670898849514388,0.052737967452709,0.0278686561765017,0.0138323222605018,-0.00539841497863375,-0.00539841497863375,-0.00280772778707839,0.00414479568881624,0.0108676674930469,-0.00539841497863375,-0.00415624881956222,-0.00539841497863375,0.0046784249755904,-0.000680850360452506,-0.00539841497863375,-0.00222126101900564,-0.00302223850625485,-0.00539841497863375,-0.00539841497863375,0.000660741644459819,0.000390957617320547,0.00161065952354943,0.00463542235289174,-0.00307869825492536,0.0590225841678115,0.0857898403135782,0.0166732050262428,0.0166114645848993,0.0132954388807985,0.00453719042190762,0.0119826662004883,0.0197444064109185,0.16476219896735,0.0133775637072525,0.0133773180391851,0.00596279328117424,0.00133795533223556,0.00580646866150526,-0.00539841497863375,0.0230096029153789,-0.00539841497863375,0.000731321509140066,-0.00539841497863375,0.142116998221226,0.112627180718079,0.0960662779119035,-0.00105606100611953,0.00466314746254468,0.01101434736978,0.0234333889136158,0.0276281847002178,0.025408730559594,0.274091560316863,0.113487492899909,0.0548038414065698,0.0498644354419468,0.0803665694234041,0.073685228770418,0.0344753798647052,0.00664219915803591,0.00544164347826951,0.0882409765534966,0.0477364102647601,0.0225461330342139,0.0163913619363235,0.0101260194037078,0.0150526779031421,-0.0037920070161168,-0.00134914380717367,-0.00230806372025719,0.00589374641988015,0.000456038870567308,0.025262367386669,0.10776272141862,0.12399627295806,0.0335216200658735,-0.0020781192893143,-0.00539841497863375,0.0106321952170294,0.016246960571639,0.00326523318574886,0.0067607710427492,0.00272598767803558,0.0121656727973085,-0.00274906322333298,0.00165351624914161,-0.00539841497863375,0.0102944235430212,0.0415733867863499,0.0888148847469373,0.0269371721363872,0.0264462478671756,0.0099856746629225,-0.00229043175255865,0.00410336441003106,0.0214986287629974,0.0236390230853077,0.0235401901335118,0.025807720427133,0.0157624036505846,0.0221274671946389,0.0205708228677987,0.0202198230658283,0.0261020966660448,0.0255781622705008,0.0273122806517348,0.0388814740360706,0.0393008144330003,0.046405634471365,0.0634982785103864,-0.000217825822669222,-0.00406910394869181,0.128720802368555,0.123381548915209,-0.00277454023120584,-0.00256422343398707,0.0201802415732539,0.0322610655164527,0.0531148839816236,0.0714196228634423,0.0444006310206151,0.0667624346212708,0.0736063264486739,0.0809018425924238,0.0879637801941184,0.0632870675160644,0.0566438666579792,0.0648573386854989,0.0127324016751402,0.0116731201306562,0.0368721999672746,0.0549767897163472,0.0645239016281242,0.089735397994637,0.108525451439229,0.132280031253346,0.130939557370367,0.135090411708124,0.0225319486250092,-0.00330425219994202,-0.0029629738561013,-0.00539841497863375,0.00606636679557855,0.0146053631004064,0.0284626669804229,0.0433932805224594,0.0462909975514419,0.0368762128706005,0.0509965913930947,0.0651390331013352,0.0558181123735252,0.0444604116905784,0.0276431096847294,0.0320478881193764,0.187508299068836,0.00367288121410977,0.00524201606848498,0.00495199812731103,0.00755794929466935,0.0207076512520874,0.0419093390964914,0.0546286607010067,0.0363557186038761,0.0316020331414364,0.0343428328108102,0.100734018969306,0.088624207716835,0.112179592640731,0.0412757460273269,0.0313360853954852,0.0388637033740967,0.0768162205535768,0.00941667810524272,0.000195176218609831,-0.00539841497863375,0.0341314931451805,0.00868425596361569,-0.000924919328577472,0.0126271509652049,0.0441712742316091,0.0811893059792719,0.0604943308026447,0.0226667633793649,0.0268599352917733,0.016069835693814,-0.00539841497863375,0.091609319281184,0.0158718686243223,0.0230905472303572,0.106192355055714,0.0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endopeptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0017171;serine hydrolase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0008236;serine-type peptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0005615;extracellular space;3.26456462623991e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0008219;cell death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0044421;extracellular region part;3.96799342549326e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0016265;death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0048468;cell development;1.75622708928195e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939!GO:0048869;cellular developmental process;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0030154;cell differentiation;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0004175;endopeptidase activity;6.86183091701417e-05;14942,14940,14943,14939,14941,14944!GO:0006508;proteolysis;0.00052187985334583;14942,14940,14943,14939,14941,14944!GO:0008233;peptidase activity;0.000803721231104847;14942,14940,14943,14939,14941,14944!GO:0032502;developmental process;0.00322055582686556;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0005605;basal lamina;0.00569053171091571;226519,16782!GO:0016787;hydrolase activity;0.00923687981078232;14942,14940,242341,19279,14943,14939,14941,14944!GO:0004278;granzyme B activity;0.014416808195913;14939!GO:0032426;stereocilium bundle tip;0.014416808195913;22295!GO:0008626;induction of apoptosis by granzyme;0.014416808195913;14939!GO:0005201;extracellular matrix structural constituent;0.0231198544623718;226519,16782!GO:0005604;basement membrane;0.0235484112202604;226519,16782!GO:0001917;photoreceptor inner segment;0.0332367573478983;22295!GO:0043259;laminin-10 complex;0.0332367573478983;226519!GO:0044420;extracellular matrix part;0.0416924805907267;226519,16782!GO:0048563;post-embryonic organ morphogenesis;0.0479613305053664;22295!GO:0009401;phosphoenolpyruvate-dependent sugar phosphotransferase system;0.0479613305053664;22295!GO:0060013;righting 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|gostat_on_MCL_coexpression=GO:0019835;cytolysis;2.53419807642747e-14;18646,14942,14940,14943,14939,14941,14944!GO:0004252;serine-type endopeptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0017171;serine hydrolase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0008236;serine-type peptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0005615;extracellular space;3.26456462623991e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0008219;cell death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0044421;extracellular region part;3.96799342549326e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0016265;death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0048468;cell development;1.75622708928195e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939!GO:0048869;cellular developmental process;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0030154;cell differentiation;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0004175;endopeptidase activity;6.86183091701417e-05;14942,14940,14943,14939,14941,14944!GO:0006508;proteolysis;0.00052187985334583;14942,14940,14943,14939,14941,14944!GO:0008233;peptidase activity;0.000803721231104847;14942,14940,14943,14939,14941,14944!GO:0032502;developmental process;0.00322055582686556;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0005605;basal lamina;0.00569053171091571;226519,16782!GO:0016787;hydrolase activity;0.00923687981078232;14942,14940,242341,19279,14943,14939,14941,14944!GO:0004278;granzyme B activity;0.014416808195913;14939!GO:0032426;stereocilium bundle tip;0.014416808195913;22295!GO:0008626;induction of apoptosis by granzyme;0.014416808195913;14939!GO:0005201;extracellular matrix structural constituent;0.0231198544623718;226519,16782!GO:0005604;basement membrane;0.0235484112202604;226519,16782!GO:0001917;photoreceptor inner segment;0.0332367573478983;22295!GO:0043259;laminin-10 complex;0.0332367573478983;226519!GO:0044420;extracellular matrix part;0.0416924805907267;226519,16782!GO:0048563;post-embryonic organ morphogenesis;0.0479613305053664;22295!GO:0009401;phosphoenolpyruvate-dependent sugar phosphotransferase system;0.0479613305053664;22295!GO:0060013;righting reflex;0.0479613305053664;22295!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005631!6.04e-65!3;UBERON:0000478!6.04e-65!3;UBERON:0000158!6.04e-65!3;UBERON:0005795!1.60e-49!4;UBERON:0000995!1.60e-49!4;UBERON:0001987!4.55e-44!2;UBERON:0003124!4.55e-44!2;UBERON:0004340!4.55e-44!2;UBERON:0003975!7.27e-40!5;UBERON:0003134!2.39e-25!8;UBERON:0006834!3.06e-23!1;UBERON:0004175!1.19e-22!9;UBERON:0000474!1.19e-22!9;UBERON:0000305!1.39e-22!1;UBERON:0003100!1.00e-18!11;UBERON:0003133!4.35e-09!24;UBERON:0004923!5.26e-09!24;UBERON:0005156!1.87e-08!26;UBERON:0000990!1.87e-08!26;UBERON:0004871!1.88e-08!3;UBERON:0007023!1.20e-07!51
|tfbs_overrepresentation_for_novel_motifs=0.0583385,0.275767,0.183547,0.554666,1.78266,0.279466,0.401081,0.187923,0.0957826,0.0203364,0.104348,0.384124,0.188374,0.134452,1.46275,0,0.259755,1.30822,0.47932,0.289816,0.960368,0.722837,0.133942,0.399688,0.191624,0.150377,0.146673,0.306197,0.0285758,0.453591,0.0850386,0.892346,0.193804,0.222725,0.0218658,0.556653,0.0688799,0.11908,0.0552815,0.0398918,0.648119,0.294713,0.131155,0.452773,0.293455,0.0707419,0.204367,0.0992908,0.14906,0.84969,0.247239,0.499026,0.422393,0.451112,0.465864,0.138517,1.72298,0.114218,0.618186,0.137352,0.320373,0.172475,0.404745,0.239273,0.144946,0.268299,0.584509,0.907487,0.316778,0.768874,0.0425289,0.357014,0.000177441,0.494514,0.00252449,0.346093,1.38729,0.196848,0.828076,0.347468,0.570624,0.272401,0.171576,0.754596,0.397678,0.00035965,0.000603662,0.454251,0.207637,1.06309,0.64713,0.40175,0.34595,0.418991,0.0107015,2.58619,0.331969,0.348163,0.204536,0.224173,0.1802,0.335693,0.436484,0.692041,0.690303,0.0872264,0.290513,0.661283,0.0397444,0.0375205,0.449672,0.437975,0.151582,0.106977,0.653522,0.95406,0.253273,0.266186,0.260696,0.174743,0.499163,0.638433,0.151457,1.08366,0.702969,0.310043,0.412705,0.340627,0.58316,0.0200996,0.422342,0.252711,0.556974,0.146415,0.673182,0.0424564,1.75893,0.296517,0.628575,1.42304,1.03234,0.588705,0.4794,0.344113,0.242322,0.614954,0.206447,1.38398,1.27158,0.0186475,0.0351966,8.88004e-05,0.452434,0.0465279,0.145874,0.522448,0.167242,3.06211,0.797857,0.0614775,0.637161,0.396979,0.310383,0.201723,0.239991,0.141571,0.587533,0.381906,0.013623
}}

Latest revision as of 14:59, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115614273..115614299,+p17@Ptprr
Mm9::chr10:59794676..59794683,-p8@Cdh23
Mm9::chr10:60760547..60760556,+p3@Prf1
Mm9::chr10:60760557..60760572,+p1@Prf1
Mm9::chr11:54716349..54716360,+p2@Gpx3
Mm9::chr12:112687835..112687862,+p2@Tnfaip2
Mm9::chr13:20203373..20203384,+p22@Elmo1
Mm9::chr14:100158827..100158833,+p@chr14:100158827..100158833
+
Mm9::chr14:56739460..56739464,-p2@Gzme
Mm9::chr14:56751427..56751432,-p1@Gzmd
p1@Gzme
Mm9::chr14:56778427..56778434,-p1@Gzmg
Mm9::chr14:56830260..56830267,-p1@Gzmf
Mm9::chr14:56853487..56853492,-p1@Gzmc
p2@Gzmf
Mm9::chr14:56857569..56857584,-p@chr14:56857569..56857584
-
Mm9::chr14:56881009..56881024,-p2@Gzmb
Mm9::chr14:56881070..56881085,-p1@Gzmb
Mm9::chr14:63810770..63810774,-p@chr14:63810770..63810774
-
Mm9::chr1:12980554..12980563,-p4@Slco5a1
Mm9::chr1:154974262..154974286,-p@chr1:154974262..154974286
-
Mm9::chr1:174532650..174532675,-p1@Fcrl6
Mm9::chr1:174532686..174532697,-p2@Fcrl6
Mm9::chr1:36700822..36700853,-p@chr1:36700822..36700853
-
Mm9::chr1:95616230..95616234,+p@chr1:95616230..95616234
+
Mm9::chr2:124475078..124475084,+p@chr2:124475078..124475084
+
Mm9::chr2:26526838..26526843,-p1@Lcn4
Mm9::chr3:69400164..69400168,-p@chr3:69400164..69400168
-
Mm9::chr4:19849746..19849761,-p2@Atp6v0d2
Mm9::chr6:122232828..122232839,-p1@Klrg1
Mm9::chr7:121714477..121714501,+p@chr7:121714477..121714501
+
Mm9::chr7:129057811..129057817,+p@chr7:129057811..129057817
+
Mm9::chr9:108382273..108382282,+p3@Lamb2
Mm9::chr9:21574303..21574331,-p@chr9:21574303..21574331
-


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:0019835cytolysis2.53419807642747e-14
GO:0004252serine-type endopeptidase activity2.59989400226143e-06
GO:0017171serine hydrolase activity2.59989400226143e-06
GO:0008236serine-type peptidase activity2.59989400226143e-06
GO:0005615extracellular space3.26456462623991e-06
GO:0008219cell death3.96799342549326e-06
GO:0044421extracellular region part3.96799342549326e-06
GO:0016265death3.96799342549326e-06
GO:0048468cell development1.75622708928195e-05
GO:0048869cellular developmental process4.46779780721031e-05
GO:0030154cell differentiation4.46779780721031e-05
GO:0004175endopeptidase activity6.86183091701417e-05
GO:0006508proteolysis0.00052187985334583
GO:0008233peptidase activity0.000803721231104847
GO:0032502developmental process0.00322055582686556
GO:0005605basal lamina0.00569053171091571
GO:0016787hydrolase activity0.00923687981078232
GO:0004278granzyme B activity0.014416808195913
GO:0032426stereocilium bundle tip0.014416808195913
GO:0008626induction of apoptosis by granzyme0.014416808195913
GO:0005201extracellular matrix structural constituent0.0231198544623718
GO:0005604basement membrane0.0235484112202604
GO:0001917photoreceptor inner segment0.0332367573478983
GO:0043259laminin-10 complex0.0332367573478983
GO:0044420extracellular matrix part0.0416924805907267
GO:0048563post-embryonic organ morphogenesis0.0479613305053664
GO:0009401phosphoenolpyruvate-dependent sugar phosphotransferase system0.0479613305053664
GO:0060013righting reflex0.0479613305053664



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>


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)
MA0003.10.00180534
MA0004.10.075713
MA0006.10.02081
MA0007.10.244089
MA0009.10.356735
MA0014.10.000178993
MA0017.10.507679
MA0019.10.221321
MA0024.10.322453
MA0025.10.553002
MA0027.11.91746
MA0028.10.0230932
MA0029.10.824884
MA0030.10.31081
MA0031.10.284004
MA0038.10.150331
MA0040.10.366712
MA0041.10.17625
MA0042.10.0421363
MA0043.10.435645
MA0046.10.385571
MA0048.10.0232488
MA0050.10.642953
MA0051.10.155655
MA0052.10.373177
MA0055.10.177583
MA0056.10
MA0057.10.0181772
MA0058.10.0399952
MA0059.10.168372
MA0060.10.116099
MA0061.10.0572065
MA0063.10
MA0066.10.869432
MA0067.10.652366
MA0068.10.0532285
MA0069.10.373449
MA0070.11.70613
MA0071.11.58013
MA0072.10.358914
MA0073.10.00126875
MA0074.11.27449
MA0076.10.0318933
MA0077.10.341791
MA0078.10.521853
MA0081.10.192641
MA0083.11.10972
MA0084.10.958921
MA0087.10.399335
MA0088.10.0063216
MA0089.10
MA0090.10.0615811
MA0091.10.278396
MA0092.10.221993
MA0093.10.0250118
MA0095.10
MA0098.10
MA0100.10.117472
MA0101.10.177595
MA0103.10.291843
MA0105.10.00212066
MA0106.10.18086
MA0107.10.11696
MA0108.20.667582
MA0109.10
MA0111.10.238061
MA0113.10.950645
MA0114.10.150918
MA0115.10.437985
MA0116.10.0207662
MA0117.10.411186
MA0119.10.400754
MA0122.10.427622
MA0124.10.604388
MA0125.10.538769
MA0130.10
MA0131.10.218222
MA0132.10
MA0133.10
MA0135.10.466327
MA0136.11.94399
MA0139.10.027105
MA0140.10.374733
MA0141.12.87773
MA0142.10.27329
MA0143.10.515613
MA0144.11.5032
MA0145.10.0575932
MA0146.19.16865e-05
MA0147.10.0652636
MA0148.10.0829136
MA0149.10.0487792
MA0062.20.224697
MA0035.20.381271
MA0039.20.00457508
MA0138.20.212837
MA0002.22.64742
MA0137.20.0342582
MA0104.20.0063375
MA0047.20.149878
MA0112.20.831351
MA0065.20.835053
MA0150.10.243955
MA0151.10
MA0152.10.149941
MA0153.10.480495
MA0154.10.354879
MA0155.10.14685
MA0156.13.98339
MA0157.10.250083
MA0158.10
MA0159.10.0719173
MA0160.11.00658
MA0161.10
MA0162.12.89931e-05
MA0163.10.0286214
MA0164.10.134941
MA0080.22.65178
MA0018.21.99059
MA0099.21.13206
MA0079.21.40231e-06
MA0102.21.0092
MA0258.11.77793
MA0259.10.0586005
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:258&oldid=3072257"