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MCL coexpression mm9:126: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_mean=0.0191366937882089,1.00075550389971,0.931984946561068,0.927990159640573,0.955009292777149,0.550840026561347,0.614013330036323,-0.0126014314318411,-0.0209307129564326,-0.0182963309038974,-0.0278782802755441,-0.0327748268040702,-0.00824619983727131,-0.0182298985528043,-0.0126877994964596,-0.0138557447754373,-0.0121827873241381,-0.00540034696594044,-0.00650069404866667,-0.00284513827996759,0.150045372579321,-0.0138531251336947,-0.0161319560201484,0.848253677153566,0.904426770928445,1.02542854975872,0.950444345340653,0.919674576811212,1.49476708940362,1.33100299640333,1.00733886880721,-0.0100471415631128,-0.018594435088877,-0.0449257065047624,0.240115151168246,0.314592583824938,0.222325373253047,0.0178517137664796,0.0254889502129698,0.0205678408412033,-0.00359386285921925,-0.00634931063792479,0.00383530893065087,-0.0174553736774468,-0.0218730386583365,-0.0321333565137042,0.0159846087996321,-0.0116977134879331,-0.010943850087412,-0.00566938617100335,0.0223859974468349,-0.0140094808447967,-0.00903723058171223,-0.0122805077357372,-0.00794625899024818,-0.00825198360453076,0.0079837113437643,0.00516524635770554,-0.0301911841977272,-0.0330279054459824,-0.0251299991870244,-0.00884576651904079,0.0123222287725749,0.0167939747559549,0.0198525888332154,0.0262446731852304,0.000445907356167103,-0.00685965610134782,-0.0298066476848645,-0.0269342429387035,-0.034474103201688,-0.0166630347699335,-0.00719964472777531,-0.0374647054005357,-0.0322910152923956,-0.0302428954626612,-0.00984123986990476,0.000604559174653917,-0.00162389808826779,-0.0285032723942218,-0.0281719773541335,-0.0262650420715,0.00217202114832132,0.00369975187635223,0.00470979765967887,-0.0138160442059877,-0.0171491551284543,-0.0260142422631994,0.00924917129985786,0.0117927780708369,0.0555539062894553,0.0056377620738895,-0.0024650080753033,-0.00338945426780727,0.0118125413876345,-0.00824450048188448,0.321453136535814,-0.0291769039818389,-0.0280131739227633,-0.0293075396216397,0.0321452684939116,-0.0266664804700515,-0.0291096141581076,-0.0449257065047624,0.0774836503566245,0.0782464748299483,0.0835114511402879,0.537434835675176,0.0191097556798978,0.015726139143777,-0.00481374059513937,0.00111061922094314,0.00323286216360798,0.00708382015454192,0.0071593925434679,0.0206664269304645,0.155846399253578,0.0288037716890985,0.000537796556225312,0.0152234727159698,0.00469536830506002,0.0125422955802136,0.544784267901419,-0.00836699674802754,-0.00317464906651095,1.00245085391879,0.0042373638379104,-0.00740043919441206,0.00302305959273356,-0.00375126029000793,-0.00366525918829703,-0.0333207923145349,-0.00352634582932995,-0.00936079411537959,-0.00223480027203003,-0.00510450252033984,0.0173533258443874,0.0452899300828345,0.0798382249482452,0.0590711390468629,-0.00932555030092385,-0.00912674785296747,-0.00421512800261364,0.0175251745416188,0.0115694272112475,0.0143529971629504,0.00964363394021468,0.0369144420035589,-0.0206079646281902,-0.00106242565723383,0.00383237191327101,0.00565911504720021,0.0166431086921828,0.0241655038313145,0.0248024080478777,0.000156154289886613,-0.00788177704295343,-0.0107213612175385,-0.0132227768211375,0.0132978642173487,0.0148140343959719,0.0148695824897547,0.0140174967059834,0.016698881985649,0.018009451339738,0.0210821527939465,0.0246545504045725,0.014213485706113,0.0167775994882488,0.0271525080280762,0.0118268740322576,0.0121081807479557,0.0230563553161815,0.0124129163226598,-0.00398509610041907,-0.018639277885457,0.791049925768845,0.730621939987683,0.0101509056438674,0.0217439097838846,0.141220700954912,0.306619708855856,0.348436305765551,0.436861817866779,0.914253327203099,0.523254973599647,0.461449888773164,0.454420373346749,0.441537517505176,0.82874781973208,0.891748020085604,0.870802673075017,0.00866568229498991,0.0470029010427618,0.0932253937231133,0.126534138373113,0.139756678011778,0.133156582600715,0.178493263442297,0.210693744364944,0.221041170759471,0.227885049705538,0.00939215051170574,-0.00943208573672278,-0.00146522542577652,-0.00474118090939073,-0.00146775550512216,0.00990787597899066,0.0164061136029932,0.0180073374954077,0.00663564637585557,0.0259356044613142,0.0561635340680653,0.0269551601213875,0.0112064908691218,0.00751610398737427,0.0074602354652475,0.00886677484266999,0.0560830007320956,-0.0106239226418368,-0.00676565460833506,0.00212752730841369,0.00401500643509624,0.0263075453982065,0.0417545897303547,0.0331215635935044,0.0215256743766833,0.0323761962200969,0.0285152212330738,0.0464560709758684,0.0577573210022983,0.0500218106931091,0.0345803104242586,0.0353022651219752,0.0243229801084432,0.0156572540592445,0.00536350926449916,0.00512050605312139,-0.0323959769729594,0.0125032006332888,-0.0248123429756011,-0.0267273846249945,-0.0185992340394833,-0.0144526848710765,-0.0102755821044059,-0.0151764311246377,-0.0167852863240326,-0.0154460059606357,-0.0214464570796983,-0.011381273058107,0.0547185435080437,0.0207524049086928,0.0142049003572987,0.0842331644463892,0.0143298787539552,0.011822090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|coexpression_dpi_cluster_scores_median=0,0.806637314705889,0.707143604836587,0.693026127609894,0.740998786187662,0.42793910986591,0.43279884002899,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.647845365388228,0.729065631234528,0.813384227532564,0.819537746805879,0.682088253031608,1.26897378875604,1.18649441467032,0.833188528928318,0,0,0,0.110202921672641,0.17571584790629,0.0806875710728457,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.152695919012311,0,0,0,0,0,0,0,0,0,0,0.340397376891893,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.347053937266044,0,0,0.803420883965945,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.520212453756822,0.595603102059038,0,0,0,0.0797901069290224,0.102654701152608,0.196086850610712,0.721873369436819,0.219792932025556,0.273109589838008,0.25426422794663,0.248645389336278,0.615048779002262,0.689351922104055,0.642009375207167,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0715544780949428,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.61847587865351,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.034489466458534,0,0.351515805403641,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0189038402020324,0.0242538736058389,0,0,0,0,0,0,0,0,0,0,0.017637724668944,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0016805;dipeptidase activity;0.0235210137974477;13479,381204!GO:0046872;metal ion binding;0.0235210137974477;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,55990,18261,12925!GO:0043167;ion binding;0.0235210137974477;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,55990,18261,12925!GO:0008238;exopeptidase activity;0.0235210137974477;13479,170745,381204!GO:0043169;cation binding;0.0357699606042344;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,18261,12925!GO:0015898;amiloride transport;0.0357699606042344;76507!GO:0004339;glucan 1,4-alpha-glucosidase activity;0.0357699606042344;232714!GO:0009068;aspartate family amino acid catabolic process;0.0357699606042344;11484!GO:0006533;aspartate catabolic process;0.0357699606042344;11484!GO:0006083;acetate metabolic process;0.0357699606042344;11484!GO:0046108;uridine metabolic process;0.0357699606042344;22271!GO:0008237;metallopeptidase activity;0.0466512051795597;13479,381204,17288!GO:0019807;aspartoacylase activity;0.0466512051795597;11484!GO:0006531;aspartate metabolic process;0.0466512051795597;11484!GO:0004238;meprin A activity;0.0466512051795597;17288!GO:0004850;uridine phosphorylase activity;0.0466512051795597;22271!GO:0008235;metalloexopeptidase activity;0.0466512051795597;13479,381204!
|gostat_on_MCL_coexpression=GO:0016805;dipeptidase activity;0.0235210137974477;13479,381204!GO:0046872;metal ion binding;0.0235210137974477;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,55990,18261,12925!GO:0043167;ion binding;0.0235210137974477;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,55990,18261,12925!GO:0008238;exopeptidase activity;0.0235210137974477;13479,170745,381204!GO:0043169;cation binding;0.0357699606042344;74315,13479,20259,20531,381204,17288,76507,170745,330064,18799,18261,12925!GO:0015898;amiloride transport;0.0357699606042344;76507!GO:0004339;glucan 1,4-alpha-glucosidase activity;0.0357699606042344;232714!GO:0009068;aspartate family amino acid catabolic process;0.0357699606042344;11484!GO:0006533;aspartate catabolic process;0.0357699606042344;11484!GO:0006083;acetate metabolic process;0.0357699606042344;11484!GO:0046108;uridine metabolic process;0.0357699606042344;22271!GO:0008237;metallopeptidase activity;0.0466512051795597;13479,381204,17288!GO:0019807;aspartoacylase activity;0.0466512051795597;11484!GO:0006531;aspartate metabolic process;0.0466512051795597;11484!GO:0004238;meprin A activity;0.0466512051795597;17288!GO:0004850;uridine phosphorylase activity;0.0466512051795597;22271!GO:0008235;metalloexopeptidase activity;0.0466512051795597;13479,381204!
}}
}}

Revision as of 12:37, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127140579..127140608,+p@chr10:127140579..127140608
+
Mm9::chr11:44332019..44332038,+p9@Rnf145
Mm9::chr11:66770184..66770195,+p5@ENSMUST00000150220
Mm9::chr11:66770199..66770206,+p6@ENSMUST00000150220
Mm9::chr11:73138118..73138143,-p1@Aspa
Mm9::chr11:86859413..86859433,-p@chr11:86859413..86859433
-
Mm9::chr11:9018574..9018596,+p2@Upp1
Mm9::chr11:9018622..9018637,+p1@Upp1
Mm9::chr11:95698517..95698533,-p@chr11:95698517..95698533
-
Mm9::chr11:96911908..96911944,+p3@Osbpl7
Mm9::chr11:99290206..99290211,-p@chr11:99290206..99290211
-
Mm9::chr12:114390254..114390268,+p1@Crip1
Mm9::chr12:40860762..40860777,-p1@Scin
Mm9::chr13:54821506..54821522,+p@chr13:54821506..54821522
+
Mm9::chr13:54828152..54828163,+p@chr13:54828152..54828163
+
Mm9::chr13:6108314..6108324,-p@chr13:6108314..6108324
-
Mm9::chr14:121859351..121859356,-p@chr14:121859351..121859356
-
Mm9::chr15:84859374..84859388,+p@chr15:84859374..84859388
+
Mm9::chr16:32487729..32487745,-p2@Osta
Mm9::chr16:32487753..32487808,-p1@Osta
Mm9::chr16:32487895..32487910,-p5@Osta
Mm9::chr16:38781282..38781293,-p@chr16:38781282..38781293
-
Mm9::chr17:24112150..24112202,-p1@Prss30
Mm9::chr17:32795823..32795858,+p1@Cyp4f40
Mm9::chr17:32795911..32795922,+p8@Cyp4f40
Mm9::chr17:32795934..32795947,+p4@Cyp4f40
Mm9::chr17:32795954..32795965,+p7@Cyp4f40
Mm9::chr17:32795966..32795986,+p2@Cyp4f40
Mm9::chr17:32795989..32796003,+p3@Cyp4f40
Mm9::chr17:32796011..32796024,+p6@Cyp4f40
Mm9::chr17:32796025..32796036,+p5@Cyp4f40
Mm9::chr17:34484746..34484750,+p@chr17:34484746..34484750
+
Mm9::chr17:35051404..35051421,+p1@Slc44a4
Mm9::chr17:88039650..88039663,+p@chr17:88039650..88039663
+
Mm9::chr18:21230830..21230852,+p1@Mep1b
Mm9::chr18:84846066..84846071,-p@chr18:84846066..84846071
-
Mm9::chr19:10140180..10140221,-p@chr19:10140180..10140221
-
Mm9::chr19:11155524..11155535,-p@chr19:11155524..11155535
-
Mm9::chr19:6105774..6105789,+p1@Naaladl1
Mm9::chr19:6108614..6108624,+p@chr19:6108614..6108624
+
Mm9::chr1:132741268..132741278,+p@chr1:132741268..132741278
+
Mm9::chr1:164816600..164816622,-p7@Fmo2
Mm9::chr1:164816630..164816633,-p12@Fmo2
Mm9::chr1:164816643..164816668,-p9@Fmo2
Mm9::chr1:74473929..74473934,+p@chr1:74473929..74473934
+
Mm9::chr2:118598502..118598516,+p1@Phgr1
Mm9::chr2:122126867..122126886,+p@chr2:122126867..122126886
+
Mm9::chr2:151822241..151822292,+p1@2310046K01Rik
Mm9::chr2:15448154..15448155,+p@chr2:15448154..15448155
+
Mm9::chr2:25119824..25119833,+p7@Tprn
Mm9::chr2:72453221..72453226,-p@chr2:72453221..72453226
-
Mm9::chr2:84355708..84355747,+p@chr2:84355708..84355747
+
Mm9::chr3:122599651..122599691,+p@chr3:122599651..122599691
+
Mm9::chr4:3866528..3866568,+p3@Chchd7
Mm9::chr4:46550462..46550465,-p@chr4:46550462..46550465
-
Mm9::chr5:135488682..135488693,-p@chr5:135488682..135488693
-
Mm9::chr5:144811498..144811515,-p1@Ocm
Mm9::chr5:31350252..31350259,-p13@Slc5a6
Mm9::chr5:32549822..32549841,+p1@Plb1
Mm9::chr5:33491600..33491610,+p@chr5:33491600..33491610
+
Mm9::chr5:53429320..53429324,+p2@Slc34a2
Mm9::chr6:128598890..128598904,+p@chr6:128598890..128598904
+
Mm9::chr6:128624019..128624031,+p@chr6:128624019..128624031
+
Mm9::chr6:40578569..40578578,+p3@Mgam
Mm9::chr6:40578587..40578594,+p4@Mgam
Mm9::chr6:40578600..40578609,+p7@Mgam
Mm9::chr6:48845242..48845263,+p1@Abp1
Mm9::chr6:54191887..54191906,-p@chr6:54191887..54191906
-
Mm9::chr6:54279832..54279837,+p@chr6:54279832..54279837
+
Mm9::chr6:86704892..86704905,-p@chr6:86704892..86704905
-
Mm9::chr6:86725155..86725177,-p@chr6:86725155..86725177
-
Mm9::chr7:148459920..148459932,-p@chr7:148459920..148459932
-
Mm9::chr7:29620915..29620941,+p5@Lgals4
Mm9::chr7:36234173..36234186,+p2@Slc7a9
Mm9::chr7:52596081..52596112,-p1@Ppfia3
Mm9::chr7:86971794..86971813,-p@chr7:86971794..86971813
-
Mm9::chr7:86981228..86981239,-p@chr7:86981228..86981239
-
Mm9::chr7:86984339..86984384,-p@chr7:86984339..86984384
-
Mm9::chr7:86985789..86985803,-p@chr7:86985789..86985803
-
Mm9::chr7:86986715..86986725,+p@chr7:86986715..86986725
+
Mm9::chr8:125717843..125717889,+p1@Dpep1
Mm9::chr8:125717900..125717912,+p3@Dpep1
Mm9::chr8:125717914..125717925,+p5@Dpep1
Mm9::chr9:118997325..118997398,-p@chr9:118997325..118997398
-
Mm9::chr9:14849550..14849579,-p2@Panx1
Mm9::chr9:65260724..65260741,+p@chr9:65260724..65260741
+
Mm9::chr9:95685948..95685955,-p@chr9:95685948..95685955
-
Mm9::chr9:98936098..98936137,-p1@Gm1123
Mm9::chr9:98936152..98936170,-p3@Gm1123
Mm9::chrX:45459962..45459971,+p@chrX:45459962..45459971
+
Mm9::chrX:45460027..45460041,+p@chrX:45460027..45460041
+
Mm9::chrX:45462068..45462083,+p2@Xpnpep2
Mm9::chrX:45462089..45462141,+p1@Xpnpep2
Mm9::chrX:45462172..45462183,+p3@Xpnpep2


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:0016805dipeptidase activity0.0235210137974477
GO:0046872metal ion binding0.0235210137974477
GO:0043167ion binding0.0235210137974477
GO:0008238exopeptidase activity0.0235210137974477
GO:0043169cation binding0.0357699606042344
GO:0015898amiloride transport0.0357699606042344
GO:0004339glucan 1,4-alpha-glucosidase activity0.0357699606042344
GO:0009068aspartate family amino acid catabolic process0.0357699606042344
GO:0006533aspartate catabolic process0.0357699606042344
GO:0006083acetate metabolic process0.0357699606042344
GO:0046108uridine metabolic process0.0357699606042344
GO:0008237metallopeptidase activity0.0466512051795597
GO:0019807aspartoacylase activity0.0466512051795597
GO:0006531aspartate metabolic process0.0466512051795597
GO:0004238meprin A activity0.0466512051795597
GO:0004850uridine phosphorylase activity0.0466512051795597
GO:0008235metalloexopeptidase activity0.0466512051795597



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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