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MCL coexpression mm9:164: Difference between revisions

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{{MCL_coexpression_mm9
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reductase activity;0.00240073715954517;68428,20321!GO:0016723;oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor;0.00240073715954517;68428,20321!GO:0016722;oxidoreductase activity, oxidizing metal ions;0.00447156352393819;68428,20321!GO:0004733;pyridoxamine-phosphate oxidase activity;0.0439991598606532;103711!GO:0008480;sarcosine dehydrogenase activity;0.0439991598606532;192166!GO:0006096;glycolysis;0.0439991598606532;18770,15275!GO:0016491;oxidoreductase activity;0.0439991598606532;68428,192166,103711,20321,12892!GO:0006007;glucose catabolic process;0.0439991598606532;18770,15275!GO:0046365;monosaccharide catabolic process;0.0439991598606532;18770,15275!GO:0019320;hexose catabolic process;0.0439991598606532;18770,15275!GO:0046164;alcohol catabolic process;0.0439991598606532;18770,15275!GO:0000041;transition metal ion transport;0.0439991598606532;68428,226781!GO:0042816;vitamin B6 metabolic process;0.0439991598606532;103711!GO:0004743;pyruvate kinase activity;0.0439991598606532;18770!GO:0008614;pyridoxine metabolic process;0.0439991598606532;103711!GO:0004109;coproporphyrinogen oxidase activity;0.0439991598606532;12892!GO:0000780;condensed nuclear chromosome, pericentric region;0.0439991598606532;232811!GO:0042819;vitamin B6 biosynthetic process;0.0439991598606532;103711!GO:0008615;pyridoxine biosynthetic process;0.0439991598606532;103711!GO:0044275;cellular carbohydrate catabolic 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|coexpression_dpi_cluster_scores_mean=0.0176564314973766,0.0157576520587386,0.0164399912946148,0.0240441960014642,0.0166877797113744,0.0146152838346759,0.0112735325850592,0.00398020196876112,-0.0002271831060735,0.00972949061793518,-0.00792265016205463,-0.00877610502937463,-0.00944552395368711,-0.0109107450909966,0.400453304684958,0.509001422566624,0.456802102611011,0.0181421408215971,0.0150786852199525,0.0561636080119525,0.0173722855570275,0.00965893214309059,0.0106814248879334,0.00393070212995148,0.00360555928320137,0.0134596903789221,0.0151256846211975,0.0147154359418726,0.020219263295407,0.00396380293594635,0.0132048875753309,0.210365498558765,0.191595096789963,0.0342278166981581,0.00205979383428451,-0.000719594651451334,-0.00208043754686466,0.0339037152174594,0.00752686715698725,0.0144096718937789,0.00408732221328875,0.000996765475458686,0.0169860583817554,-0.00140246812781289,-0.00302971559278038,-0.00356896065830232,-0.00979660265588815,-0.00970756221282349,-0.00968106165157802,-0.00582950193892105,-0.0110936568427988,-0.0135429170510692,-0.00570783805231478,-0.000661499391731602,-0.00193420868588372,-0.0105750094752408,-0.00701031531988678,0.00329966111064485,0.00495351413308541,0.00682279666574735,0.010565268719047,0.000460906950742607,-0.00941904050855896,-8.50651299302913e-05,0.000602925152800223,0.0125560396643904,-0.00175363990785573,-0.00118601363746705,0.0140158476696273,0.0105589458364803,0.0142122196823003,0.0106724499723104,0.00994378884364502,0.00896788249781607,0.00233251765839419,-0.00509143985261075,0.0132526041295697,0.0167928761633685,0.00917595414376265,0.0147117551774185,0.0146195208435502,0.00805620780272656,0.0223192287218707,0.0242400127743773,0.0202665463799285,0.00792395143750314,0.0188298463529836,0.026342056674413,-0.00843475778514876,-0.00818471824082318,0.00897409514842303,0.015750658389705,0.00547363424801707,0.025549875281995,0.01258056371399,0.0203634363073968,0.0884577423411528,-0.0075075787915004,-0.0105489833402186,-0.0135429170510692,0.00623819293009156,-0.0135429170510692,-0.0135429170510692,-0.0135429170510692,-0.00902867588252233,-0.00942189825510605,-0.00823880327518922,0.0610270623975752,0.00540710504087155,0.0206533897132487,0.178160218016823,0.203174430020182,0.158507876169147,0.0846261796690301,0.0897256677612924,0.0126358123378229,0.0357488090583416,0.00590135017803173,0.271680573362594,0.158340264243946,0.317601434874362,0.312798495961176,-0.00672261077885182,0.0141883640283346,0.0212723068525239,0.00975843862036107,-0.00196393209861439,0.000705814519652142,0.00282116982778083,0.0369287316805043,0.0381646009963558,0.0220894258827266,0.0163893842998934,0.0137069450481106,0.0273942813217417,0.0294233183817393,0.010951017841242,0.208441063525728,0.0171451935809549,0.022594471775543,0.0424200364203905,0.025028955851602,0.0264466808711997,0.113484597007756,0.0354492956514854,0.0337044944071045,0.0303685970316349,0.0298417647254393,0.0517479947530984,0.0482982817703594,0.016234117102124,0.0168812260417413,0.0231237530916313,0.0141446000673453,0.00597836688013053,0.0393141960190186,-0.0100949476370368,0.00631911155580511,0.00655636813416686,0.210284057609083,0.204442707127127,0.0629426062842074,0.0329865192908294,0.0444624689287011,0.0344291315107344,0.0238576596051324,0.0255148071150341,0.0227951495767734,0.0149491952572828,0.0165708292375377,0.0198953512261428,0.0305304802869567,0.0295892509503553,0.0184493589955484,0.0165200940258055,0.019104562080746,0.030516159090135,0.0210033087262917,0.10252869531999,0.132589224316469,0.0781758827549489,0.056381438786865,0.0478266520887709,0.0844028842215657,0.0166746427220568,0.048932925764016,0.0656747603141647,0.0499152198335558,0.0536627555707053,0.00975150524613314,0.0156476205645976,0.0129641460305177,0.0150545561504957,0.118525126148626,0.0109185220865826,0.0224087208411829,0.0102831763908824,0.0183395718677754,0.00825513233148311,0.00844071004800251,0.00779569697403966,0.0079314376384658,0.0170099317273168,0.907231957009864,0.937964382075985,1.00164942998793,1.00682912860426,0.979258549586519,0.877992118697901,0.704270171709126,0.436088449388428,0.369632548172145,0.166421874617969,0.154570419790336,0.0570701990453153,0.0225028687230221,0.0238336498671959,0.0191848697593052,0.00643089354440936,0.094934250344384,0.03705295372009,0.00684104842698791,0.0110794586909501,0.0204683973915863,0.0272216582387619,0.0393825162513079,0.0232015437303822,0.0194730319657999,0.00310675360999935,0.0339005397628773,0.023155277563097,0.0220688170849082,0.0117423763658452,0.0231221486619825,-0.000635973188926339,0.000802324308695061,0.0205771027727804,0.0269582227576841,-0.00776873267619742,0.0252180021900098,0.00696222558401116,0.0191628875452992,0.00786297567781095,-0.00218282506401388,0.0022845497614178,-0.00193803972133672,0.00288908076030872,0.0106250814058384,0.00900711129810657,0.0209696429629149,0.014926158783369,0.0522278746951506,0.0353526964386868,0.00112882852523449,0.00580987494606312,0.100002157593912,0.0491355602446424,0.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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.300884327422511,0.418268492413706,0.380052651166226,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.151729951641765,0.115432590314795,0.0901223798974778,0.06097065795378,0.0482820047261801,0,0,0,0.275221618407307,0.121735003810417,0.274934742957371,0.294411220774837,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.137740408373976,0,0,0,0,0,0.0609639314262262,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.150526661879793,0.0915002620172692,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0839639919176933,0.0906941294286938,0.0526429550379996,0,0,0,0,0,0,0,0,0,0,0,0,0.0893741091821246,0,0,0,0,0,0,0,0,0,0.855717111971577,0.885531162956076,0.989877777624125,0.917878669865973,0.875743051677014,0.83609580362791,0.648589652941935,0.390796859579835,0.321856331993588,0,0.137398724818722,0,0,0,0,0,0.0753613107413788,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0943944778653996,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.306473340882971,0.150072612586664,0.508170597989631,0.593499524727204,0.443579783280573,0.40080072607553,0,0,0,0,0.0637715600712905,0.0803809427109337,0.0445418537893845,0,0.0725944312186246,0,0,0,0,0,0,0.0091054499984286,0.0664968100861445,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.254801703227441,0.268031959483673,0.426344518514299,0.31134390827267,0.135986724295729,0.159715578577694,0.202385865805556,0.215330413983256,0.167873100778245,0.178101321237085,0.139013627015232,0.166787449282399,0.146208812506565,0.146762969796454,0.169172763866184,0.165403796547116,0.141706336142815,0.14986111676545,0.123899643579403,0.128033729919821,0.18156175448065,0.14956300122681,0.157166310227119,0.167478880586199,0.153227190892218,0.135404897539632,0.101427320830301,0.104353329269123,0.193442483447008,0.132229279644795,0.112441925220423,0.148982201447044,0.117229416500102,0.198305064902181,0,0.166685587652774,0.0845301845292944,0,0.0865703124974023,0.0806834005485451
|gostat_on_MCL_coexpression=GO:0000293;ferric-chelate reductase activity;0.00240073715954517;68428,20321!GO:0016723;oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor;0.00240073715954517;68428,20321!GO:0016722;oxidoreductase activity, oxidizing metal ions;0.00447156352393819;68428,20321!GO:0004733;pyridoxamine-phosphate oxidase activity;0.0439991598606532;103711!GO:0008480;sarcosine dehydrogenase activity;0.0439991598606532;192166!GO:0006096;glycolysis;0.0439991598606532;18770,15275!GO:0016491;oxidoreductase activity;0.0439991598606532;68428,192166,103711,20321,12892!GO:0006007;glucose catabolic process;0.0439991598606532;18770,15275!GO:0046365;monosaccharide catabolic process;0.0439991598606532;18770,15275!GO:0019320;hexose catabolic process;0.0439991598606532;18770,15275!GO:0046164;alcohol catabolic process;0.0439991598606532;18770,15275!GO:0000041;transition metal ion transport;0.0439991598606532;68428,226781!GO:0042816;vitamin B6 metabolic process;0.0439991598606532;103711!GO:0004743;pyruvate kinase activity;0.0439991598606532;18770!GO:0008614;pyridoxine metabolic process;0.0439991598606532;103711!GO:0004109;coproporphyrinogen oxidase activity;0.0439991598606532;12892!GO:0000780;condensed nuclear chromosome, pericentric region;0.0439991598606532;232811!GO:0042819;vitamin B6 biosynthetic process;0.0439991598606532;103711!GO:0008615;pyridoxine biosynthetic process;0.0439991598606532;103711!GO:0044275;cellular carbohydrate catabolic process;0.0492542329247989;18770,15275!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002106!2.03e-08!6;UBERON:0004457!2.03e-08!6;UBERON:0000042!2.03e-08!6;UBERON:0004854!2.03e-08!6;UBERON:0009034!2.03e-08!6;UBERON:0002095!2.03e-08!6;UBERON:0004782!2.03e-08!6;UBERON:0003281!2.03e-08!6;UBERON:0009664!2.03e-08!6;UBERON:0002296!2.03e-08!6;UBERON:0005602!2.03e-08!6;UBERON:0001179!2.03e-08!6;UBERON:0006293!2.03e-08!6;UBERON:0005172!6.45e-08!49;UBERON:0005173!6.45e-08!49;UBERON:0002417!6.45e-08!49;UBERON:0000916!6.45e-08!49
}}

Latest revision as of 14:48, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:61790414..61790427,-p13@Hk1
Mm9::chr10:80598968..80599012,+p5@Zbtb7a
Mm9::chr11:117659040..117659062,+p1@6030468B19Rik
Mm9::chr11:74433178..74433216,+p2@E130309D14Rik
Mm9::chr11:77885415..77885418,+p@chr11:77885415..77885418
+
Mm9::chr11:84637090..84637112,-p@chr11:84637090..84637112
-
Mm9::chr11:84637170..84637197,-p@chr11:84637170..84637197
-
Mm9::chr11:84637220..84637231,-p@chr11:84637220..84637231
-
Mm9::chr11:96805245..96805254,-p5@Pnpo
Mm9::chr12:52930846..52930857,-p7@Hectd1
Mm9::chr13:53537276..53537281,+p@chr13:53537276..53537281
+
Mm9::chr13:76154994..76155011,-p@chr13:76154994..76155011
-
Mm9::chr13:76193135..76193185,+p@chr13:76193135..76193185
+
Mm9::chr14:27813679..27813693,+p2@Hesx1
Mm9::chr14:55681772..55681781,+p@chr14:55681772..55681781
+
Mm9::chr14:70019476..70019481,-p@chr14:70019476..70019481
-
Mm9::chr15:35130686..35130729,+p@chr15:35130686..35130729
+
Mm9::chr15:78091332..78091357,+p5@Ncf4
Mm9::chr16:11584601..11584606,+p@chr16:11584601..11584606
+
Mm9::chr16:58670163..58670203,+p3@Cpox
Mm9::chr16:58670348..58670359,+p2@Cpox
Mm9::chr17:25223888..25223930,+p@chr17:25223888..25223930
+
Mm9::chr17:29580791..29580806,-p@chr17:29580791..29580806
-
Mm9::chr17:71619652..71619694,-p@chr17:71619652..71619694
-
Mm9::chr18:54582024..54582035,+p2@9430076G02Rik
Mm9::chr19:56000423..56000437,+p@chr19:56000423..56000437
+
Mm9::chr19:56000441..56000469,+p@chr19:56000441..56000469
+
Mm9::chr19:56012976..56012990,+p@chr19:56012976..56012990
+
Mm9::chr1:122167601..122167610,-p6@Steap3
Mm9::chr1:122167651..122167662,-p3@Steap3
Mm9::chr1:175280282..175280308,+p@chr1:175280282..175280308
+
Mm9::chr1:181906066..181906070,+p10@Cdc42bpa
Mm9::chr1:187278654..187278679,+p4@Slc30a10
Mm9::chr1:187278682..187278696,+p5@Slc30a10
Mm9::chr1:194861845..194861922,-p1@Syt14
Mm9::chr2:145924938..145924957,-p@chr2:145924938..145924957
-
Mm9::chr2:155814929..155814968,-p@chr2:155814929..155814968
-
Mm9::chr2:155815043..155815067,+p@chr2:155815043..155815067
+
Mm9::chr2:27080713..27080729,-p16@Sardh
Mm9::chr3:116562475..116562486,+p4@Frrs1
Mm9::chr3:116562492..116562509,+p2@Frrs1
Mm9::chr3:116562511..116562523,+p5@Frrs1
Mm9::chr3:153396873..153396893,-p@chr3:153396873..153396893
-
Mm9::chr3:88940055..88940105,+p1@Pklr
Mm9::chr4:109078850..109078867,-p1@uc008uch.1
Mm9::chr4:116666344..116666359,-p3@Urod
Mm9::chr4:141573922..141573949,+p1@uc008vpq.1
Mm9::chr4:46417096..46417112,-p1@Hemgn
Mm9::chr4:87452236..87452249,-p9@Mllt3
Mm9::chr5:116397935..116397956,+p@chr5:116397935..116397956
+
Mm9::chr5:35317630..35317648,+p7@Rgs12
Mm9::chr5:37112052..37112057,-p@chr5:37112052..37112057
-
Mm9::chr5:38899296..38899314,+p@chr5:38899296..38899314
+
Mm9::chr6:41653083..41653097,-p@chr6:41653083..41653097
-
Mm9::chr6:83301229..83301242,+p3@Bola3
Mm9::chr7:110962582..110962608,+p@chr7:110962582..110962608
+
Mm9::chr7:111067471..111067472,+p@chr7:111067471..111067472
+
Mm9::chr7:148382749..148382757,+p6@Lrrc56
Mm9::chr7:17642177..17642223,-p3@Hif3a
Mm9::chr7:4693441..4693454,+p10@Suv420h2
Mm9::chr7:52184039..52184051,-p8@Ap2a1
Mm9::chr8:90824273..90824283,+p@chr8:90824273..90824283
+
Mm9::chr8:90824303..90824338,+p@chr8:90824303..90824338
+
Mm9::chr8:90824341..90824359,+p@chr8:90824341..90824359
+
Mm9::chr9:48147805..48147837,-p@chr9:48147805..48147837
-
Mm9::chrX:8834026..8834043,-p1@uc009spp.1
Mm9::chrX:8834052..8834063,-p2@uc009spp.1


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



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


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