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MCL coexpression mm9:113: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_mean=0.010051140952034,-0.037325012008952,-0.0328125984739444,-0.0278579947799401,-0.0246839503256415,-0.0292885447553461,-0.0252756542702352,0.0431868457244341,0.000104521779723378,0.0118560705145192,-0.00189642434567643,-0.00423190857717373,0.0534334491986588,0.0440844208942229,-0.00454631223387142,0.00623534162854317,-0.000200487870173595,0.0394887176143443,0.0428183267656298,0.0206316657780837,0.0827395483965972,0.0395400436958445,0.0284025633118169,-0.0215651631787042,-0.0219799188315119,-0.0325098771344502,-0.039159621131081,-0.0265307655833375,-0.024746841725251,-0.0225613043325545,-0.0300356281533459,-0.00735717310029132,-0.0124262686662635,-0.0345371507419821,-0.0183970549315289,-0.0240264527013645,-0.0185390848788947,-0.0131794367174308,-0.0155065566518665,-0.0183698527450942,-0.0117847200306912,-0.0109049387107868,-0.00686075764927784,0.00172041283789339,0.00040895230452576,-0.00637834412455425,-0.0299014312393759,-0.0175627662298837,-0.017416797543827,-0.0153175782539981,-0.0163148873139914,-0.0157706898997144,0.0221246299057326,0.0426482129608889,0.0461704461366944,-0.0199460005657201,-0.0127952526314698,-0.0227128026845217,0.0159135171323536,0.0374125903792667,0.0060733162581167,-0.0223353626721467,-0.0225627861575898,-0.018268091758848,-0.0203621889199738,-0.0118533842374737,-0.0102024667725888,-0.000381859088660051,0.0761281134022233,0.0550890901736421,0.0359232754355023,0.0284445311240027,0.0415349841575972,0.035025367748337,0.0297032852191089,0.034636502591527,0.0677350074448288,0.114467460035203,0.11354951484943,0.0282311901589746,0.0368265038190469,0.0474689505934894,0.0591793197658519,0.079865701765957,0.13042356073496,0.108093134299867,0.0957569925517629,0.0512837106267616,-0.0147788057404121,-0.0110795918461386,0.00106167610729378,-0.0205926419134081,-0.0280467441935493,-0.0269150335231507,-0.0168452627536022,-0.0220250168487428,0.0145382741477877,-0.0165571207719932,-0.0170481978808401,-0.0224645464430649,0.0137711047650322,-0.0120656095852509,-0.0187013525345338,-0.0178011773859128,-0.0315188765919738,-0.0332992418376339,-0.0303871468476941,0.0157342774049963,0.0496148689724756,0.0214224675344542,0.00624706372156151,0.0152045720915455,0.00497774511198109,0.0169295104171734,0.0321523355624711,0.00408912491738118,-0.0159205578163829,0.00480274420925164,0.00347171415971501,0.0351356252360047,0.0577390644433812,0.0447319158669695,-0.0127629447073122,0.256152920457189,0.214622861445239,-0.00376291260737706,-0.00575801138086285,-0.0106949821754163,-0.00687101158821499,0.172867637171892,0.210536870890762,0.154882156181094,0.272335015204619,0.334022061971165,0.127530114369533,0.211409159414975,0.0166757356500662,0.0328986146154649,0.0327261960119731,0.0372923019223889,0.0184636784983531,0.00334482735282206,0.0113280734112938,0.0576731945593288,0.0495323177525809,0.066826333337352,0.0448115538302288,0.103757624373158,-0.00439498427229581,0.0195282623224389,0.0248571016536073,0.0118273668266755,0.029807711584599,0.0306439575800299,0.0266037424475389,0.01464952563019,-0.0149329297497183,-0.0186337768543459,-0.0113211975872352,-0.00136972837572234,0.00686341566058322,-0.000583418880442914,0.00758882975607907,0.00557325761234194,0.00978183327015046,0.00737502928723313,0.00289899896356153,0.01830223313909,0.00915777123479335,0.0318020324006485,0.0130801393660247,0.020587398992282,0.017356888952312,0.0126614897728004,0.188453789157188,0.143165053209489,-0.01549696840727,-0.0179670215285933,0.00165155258802166,0.016839783146713,0.00287298685965009,-0.00234025326214385,-0.00442632972172635,-0.00795790691571197,-0.00291120742518558,-0.0109028069794357,-0.00102647702629609,0.00192489887230479,-0.0022432410497135,0.00494870414459035,-0.00396838118205386,-0.00593608604883706,0.00432567691197655,0.0156527755222526,0.0108339201636027,0.0169808517714708,0.015634569586655,0.0135565050794581,0.0120849746855942,0.00829022165262348,0.00789051060607453,-0.000844905359953986,-0.0168072040696494,-0.00822413004523487,-0.00985084886630544,-0.0115690312243968,-0.0123549832812594,-0.0030783644946766,-0.00771539064312316,-0.00186392575240971,0.00762079377418086,-0.0086007041504253,0.0664306453616588,-0.0035435369823748,0.00129909288120306,-0.00919516308720329,-0.0128917014972252,-0.01519994231175,0.0278089262981138,-0.001848231042591,0.00580338919752612,0.00295901096880062,0.00182928644629194,0.0238790771480729,0.00805356923899224,0.0185936567631779,0.0290771953567135,0.0300143016428625,0.033025471914998,0.0348261711708015,0.0432845572123578,0.0213709439866162,-0.00756169604599706,-0.0145213862028737,0.00438056801843253,-0.00258454616304873,0.112399419529593,0.127392297213043,-0.0231009488208914,0.0121592671210595,0.00721874215850855,0.00477904882138729,0.0305330717346509,0.00296610837998229,0.00509170964237645,0.00660065381908165,0.00672083235857591,0.0239150082656928,0.0196743615113867,0.303430859265474,0.0192011921028175,0.00959107962232932,0.0209878069888646,0.0357662911949392,0.00310318616029826,-0.00190415702895803,-0.00338060822803921,-0.0014306803966919,-0.00974865442288837,-0.00262259177661814,0.000394059974529623,0.00767214803226952,0.00756258789926777,0.00373158978638348,-0.0138069227330822,0.00175687219839654,0.0395026083541413,0.00527598675243873,-0.000156530012452518,0.00702458158438106,0.0194608139173907,0.0223932419696631,0.0209448362104325,0.00889979287537444,-0.0102955238279745,-0.00795130826574749,0.00254058278497143,0.0268585705242354,0.0220215197546232,0.0204321280359891,0.0164243825239081,0.0266611949192063,-0.00103384123476948,0.12479139067145,0.0190273970432888,0.00726804593139289,0.0189958342638619,0.0403229646915163,0.0557921259606936,0.0424147841738008,0.00505967994919842,0.00630148853137114,0.0102597683641279,-0.0131445881483262,-0.00708559537659363,0.0082956883866208,0.00709653400396148,0.00703267986053778,0.0105145391198496,0.0136659586065977,0.0124735990921009,-0.00373222059877954,0.00435636034544819,0.00807398059249231,-0.00162505328927841,0.014637028105217,0.0055300298345413,0.0167855295560133,0.0118257190250412,0.0213966403510937,0.0279598652593708,0.0268111623817606,0.0162808085526593,0.0156591023521724,0.0114412049187806,0.441768061156989,0.0228981058983977,0.135183091779768,0.288611704560753,0.303997394918715,0.419681070735181,0.492488604275234,0.518313074617207,0.583133844258936,0.578005326563281,0.722566108950716,0.64784662658114,0.62022508814222,0.661900570704175,0.0161154406856914,-0.0166533774773149,-0.0204101330308625,-0.0246410400649403,0.01250148737108,0.00722236843077065,0.0114209195656213,0.00854428534972982,0.00973731660506419,0.569188337887952,0.477312781323741,0.53327251014888,0.485919117348203,0.359415349383526,0.431314063835046,0.37507410945635,0.395684823971036,0.406278726944483,0.40477450158141,-0.00177017053822787,0.0301254842054786,0.0282376053845054,0.0503846315506514,0.00686736583733611,0.0146278870004953,0.0561446250282703,0.0610810814369912,0.045801875150917,0.0500472235353652,0.0401683503658817,0.0484249293287315,0.0572420646979334,0.0460125061358405,0.0417924039475087,0.0531072294467907,0.0498955588787501,0.0485971056176692,0.0447194168349203,0.0549445717492252,0.0841823071280666,0.0722585230710371,0.0665241150201453,0.0449096633876596,0.0448622925398323,0.059296450794284,0.0779646096681265,0.0857218392403976,0.0666485128821538,0.0498435729940784,0.0533599418312466,0.0621940264249996,0.0674731393618518,0.046516973581107,0.041274630043576,0.0507646432756033,0.0401936496532655,0.0448996804314942,0.0342533397107091,0.0145960937754967,0.0235537959313078
|gostat_on_MCL_coexpression=
}}

Latest revision as of 14:43, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:122115711..122115720,+p7@Ppm1h
Mm9::chr11:31924695..31924708,+p@chr11:31924695..31924708
+
Mm9::chr11:31924712..31924739,+p@chr11:31924712..31924739
+
Mm9::chr11:31924772..31924800,+p@chr11:31924772..31924800
+
Mm9::chr11:31924848..31924866,+p@chr11:31924848..31924866
+
Mm9::chr11:31924868..31924886,+p@chr11:31924868..31924886
+
Mm9::chr11:31931173..31931186,+p@chr11:31931173..31931186
+
Mm9::chr11:46052305..46052309,-p@chr11:46052305..46052309
-
Mm9::chr11:58660655..58660728,+p1@LOC100502966
Mm9::chr11:88922011..88922113,-p1@Dgke
Mm9::chr11:97847698..97847786,-p1@Plxdc1
Mm9::chr13:102464468..102464567,-p2@Pik3r1
Mm9::chr15:99065696..99065700,+p@chr15:99065696..99065700
+
Mm9::chr16:55934958..55934981,-p2@Cep97
Mm9::chr17:34767458..34767474,+p@chr17:34767458..34767474
+
Mm9::chr17:34768037..34768092,+p3@Prrt1
Mm9::chr17:51951383..51951409,-p19@Satb1
Mm9::chr17:51992479..51992486,+p@chr17:51992479..51992486
+
Mm9::chr17:51998921..51998922,+p@chr17:51998921..51998922
+
Mm9::chr18:33118218..33118231,+p@chr18:33118218..33118231
+
Mm9::chr18:33154628..33154632,+p@chr18:33154628..33154632
+
Mm9::chr18:33167345..33167361,+p@chr18:33167345..33167361
+
Mm9::chr1:138043126..138043128,+p@chr1:138043126..138043128
+
Mm9::chr1:138043229..138043242,+p@chr1:138043229..138043242
+
Mm9::chr2:117123888..117123931,-p@chr2:117123888..117123931
-
Mm9::chr3:9799352..9799376,-p@chr3:9799352..9799376
-
Mm9::chr4:32951575..32951591,-p3@Ankrd6
Mm9::chr5:107788625..107788637,+p3@Brdt
Mm9::chr5:124637012..124637069,-p3@Pitpnm2
Mm9::chr6:142807025..142807029,-p@chr6:142807025..142807029
-
Mm9::chr6:142832348..142832363,-p@chr6:142832348..142832363
-
Mm9::chr6:8459783..8459794,+p7@Glcci1
Mm9::chr6:8459857..8459875,+p4@Glcci1
Mm9::chr7:109082467..109082540,+p2@Numa1
Mm9::chr7:129481109..129481121,+p@chr7:129481109..129481121
+
Mm9::chr7:129509590..129509601,+p@chr7:129509590..129509601
+
Mm9::chr7:129509653..129509669,+p@chr7:129509653..129509669
+
Mm9::chr7:129510049..129510072,+p@chr7:129510049..129510072
+
Mm9::chr7:129510086..129510101,+p@chr7:129510086..129510101
+
Mm9::chr7:129520823..129520852,+p@chr7:129520823..129520852
+
Mm9::chr7:129520917..129520931,+p@chr7:129520917..129520931
+
Mm9::chr8:75212285..75212296,+p@chr8:75212285..75212296
+
Mm9::chr8:75212354..75212365,+p@chr8:75212354..75212365
+
Mm9::chr8:75212378..75212397,+p@chr8:75212378..75212397
+
Mm9::chr9:111976372..111976383,-p@chr9:111976372..111976383
-
Mm9::chr9:111990251..111990269,-p@chr9:111990251..111990269
-
Mm9::chr9:111995138..111995153,-p@chr9:111995138..111995153
-
Mm9::chr9:111997630..111997643,-p@chr9:111997630..111997643
-
Mm9::chr9:112000170..112000219,-p@chr9:112000170..112000219
-
Mm9::chr9:112000249..112000259,-p@chr9:112000249..112000259
-
Mm9::chr9:112000325..112000340,-p@chr9:112000325..112000340
-
Mm9::chr9:112000473..112000482,-p@chr9:112000473..112000482
-
Mm9::chr9:112000507..112000516,-p@chr9:112000507..112000516
-
Mm9::chr9:112000575..112000589,-p@chr9:112000575..112000589
-
Mm9::chr9:112001705..112001729,-p@chr9:112001705..112001729
-
Mm9::chr9:112001739..112001753,-p@chr9:112001739..112001753
-
Mm9::chr9:112001782..112001793,-p@chr9:112001782..112001793
-
Mm9::chr9:112001830..112001842,-p@chr9:112001830..112001842
-
Mm9::chr9:112001961..112001972,-p@chr9:112001961..112001972
-
Mm9::chr9:112002495..112002510,-p@chr9:112002495..112002510
-
Mm9::chr9:112007466..112007470,-p@chr9:112007466..112007470
-
Mm9::chr9:112010640..112010658,-p@chr9:112010640..112010658
-
Mm9::chr9:112016368..112016375,-p@chr9:112016368..112016375
-
Mm9::chr9:112016456..112016468,-p@chr9:112016456..112016468
-
Mm9::chr9:112022678..112022692,-p@chr9:112022678..112022692
-
Mm9::chr9:112023087..112023093,-p@chr9:112023087..112023093
-
Mm9::chr9:112023837..112023850,-p@chr9:112023837..112023850
-
Mm9::chr9:112023877..112023888,-p@chr9:112023877..112023888
-
Mm9::chr9:112026857..112026885,-p@chr9:112026857..112026885
-
Mm9::chr9:112026916..112026928,-p@chr9:112026916..112026928
-
Mm9::chr9:112027266..112027276,-p@chr9:112027266..112027276
-
Mm9::chr9:112027328..112027337,-p@chr9:112027328..112027337
-
Mm9::chr9:112029309..112029312,-p@chr9:112029309..112029312
-
Mm9::chr9:112041570..112041581,-p@chr9:112041570..112041581
-
Mm9::chr9:112041848..112041869,-p@chr9:112041848..112041869
-
Mm9::chr9:112043055..112043058,-p@chr9:112043055..112043058
-
Mm9::chr9:112043828..112043832,-p@chr9:112043828..112043832
-
Mm9::chr9:112043901..112043905,-p@chr9:112043901..112043905
-
Mm9::chr9:112058510..112058526,-p@chr9:112058510..112058526
-
Mm9::chr9:112058591..112058637,-p@chr9:112058591..112058637
-
Mm9::chr9:112058717..112058735,-p@chr9:112058717..112058735
-
Mm9::chr9:112058965..112058977,-p@chr9:112058965..112058977
-
Mm9::chr9:112059883..112059887,-p@chr9:112059883..112059887
-
Mm9::chr9:112062765..112062777,-p@chr9:112062765..112062777
-
Mm9::chr9:112062960..112062971,-p@chr9:112062960..112062971
-
Mm9::chr9:112063185..112063192,-p@chr9:112063185..112063192
-
Mm9::chr9:112066800..112066813,-p@chr9:112066800..112066813
-
Mm9::chr9:112066855..112066869,-p@chr9:112066855..112066869
-
Mm9::chr9:112067047..112067063,-p@chr9:112067047..112067063
-
Mm9::chr9:112067580..112067585,-p@chr9:112067580..112067585
-
Mm9::chr9:112069125..112069159,-p@chr9:112069125..112069159
-
Mm9::chr9:112069190..112069206,-p@chr9:112069190..112069206
-
Mm9::chr9:112074981..112074991,-p@chr9:112074981..112074991
-
Mm9::chr9:112102410..112102419,-p@chr9:112102410..112102419
-
Mm9::chr9:112102521..112102532,-p@chr9:112102521..112102532
-
Mm9::chr9:112114255..112114257,-p@chr9:112114255..112114257
-
Mm9::chr9:112119048..112119067,-p@chr9:112119048..112119067
-
Mm9::chr9:112129709..112129721,-p@chr9:112129709..112129721
-
Mm9::chr9:112132489..112132500,-p@chr9:112132489..112132500
-
Mm9::chr9:112133673..112133688,-p@chr9:112133673..112133688
-
Mm9::chr9:112134953..112134964,-p17@Arpp21
Mm9::chr9:112135816..112135827,-p15@Arpp21
Mm9::chr9:112135883..112135916,-p14@Arpp21
Mm9::chr9:112136055..112136074,-p16@Arpp21
Mm9::chr9:112137388..112137407,-p9@Arpp21
Mm9::chr9:94569314..94569331,+p@chr9:94569314..94569331
+


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

no results for this coexpression

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
occipital lobe9.33e-1710
visual cortex9.33e-1710
neocortex9.33e-1710
regional part of nervous system4.50e-1654
neural tube1.11e-1552
neural rod1.11e-1552
future spinal cord1.11e-1552
neural keel1.11e-1552
brain1.76e-1547
future brain1.76e-1547
regional part of brain1.95e-1446
organ part1.99e-1399
neurectoderm2.02e-1364
neural plate2.02e-1364
presumptive neural plate2.02e-1364
cerebral cortex6.66e-1321
cerebral hemisphere6.66e-1321
pallium6.66e-1321
gray matter1.13e-1234
brain grey matter1.26e-1229
regional part of telencephalon1.26e-1229
telencephalon1.26e-1229
regional part of cerebral cortex1.57e-1217
central nervous system5.80e-1273
anterior neural tube1.48e-1140
nervous system1.97e-1175
ecto-epithelium8.19e-1173
thymus1.19e-1023
neck1.19e-1023
respiratory system epithelium1.19e-1023
hemolymphoid system gland1.19e-1023
pharyngeal epithelium1.19e-1023
thymic region1.19e-1023
pharyngeal gland1.19e-1023
entire pharyngeal arch endoderm1.19e-1023
thymus primordium1.19e-1023
early pharyngeal endoderm1.19e-1023
regional part of forebrain1.23e-1039
forebrain1.23e-1039
future forebrain1.23e-1039
pre-chordal neural plate2.00e-1049
organ segment2.06e-1035
pharynx4.67e-1024
gland of gut4.67e-1024
upper respiratory tract4.67e-1024
chordate pharynx4.67e-1024
pharyngeal arch system4.67e-1024
pharyngeal region of foregut4.67e-1024
ectoderm-derived structure8.24e-0995
ectoderm8.24e-0995
presumptive ectoderm8.24e-0995
segment of respiratory tract1.51e-0827
hemopoietic organ1.01e-0729
immune organ1.01e-0729
craniocervical region2.19e-0736
structure with developmental contribution from neural crest4.54e-0792


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)
MA0003.15.15404e-08
MA0004.10.0680352
MA0006.10.0117329
MA0007.10.05724
MA0009.11.34023
MA0014.11.37469e-06
MA0017.10.0201099
MA0019.11.05485
MA0024.10.0543423
MA0025.11.6048
MA0027.11.40339
MA0028.10.00141055
MA0029.10.405247
MA0030.10.0497682
MA0031.10.155962
MA0038.10.927384
MA0040.10.25566
MA0041.12.66154
MA0042.12.86368
MA0043.10.107997
MA0046.10.280582
MA0048.10.000595289
MA0050.10.737458
MA0051.10.25058
MA0052.10.264121
MA0055.10.0981589
MA0056.10
MA0057.10.0592078
MA0058.10.044177
MA0059.10.183103
MA0060.10.00377089
MA0061.10.120446
MA0063.10
MA0066.10.103031
MA0067.10.247312
MA0068.10.505833
MA0069.10.559907
MA0070.10.0729343
MA0071.10.100854
MA0072.10.245571
MA0073.10.00592798
MA0074.10.497855
MA0076.10.00326305
MA0077.10.83857
MA0078.10.306673
MA0081.10.0718101
MA0083.10.349091
MA0084.10.494794
MA0087.11.54252
MA0088.10.0840041
MA0089.10
MA0090.10.296618
MA0091.10.0311117
MA0092.10.181208
MA0093.10.0391211
MA0095.10
MA0098.10
MA0100.10.285589
MA0101.10.201553
MA0103.10.531245
MA0105.10.0160409
MA0106.10.320682
MA0107.10.0219275
MA0108.20.0254125
MA0109.10
MA0111.10.11427
MA0113.10.271304
MA0114.10.00309068
MA0115.10.109267
MA0116.10.360769
MA0117.10.0950849
MA0119.10.117703
MA0122.10.338612
MA0124.10.213166
MA0125.10.169252
MA0130.10
MA0131.10.0204928
MA0132.10
MA0133.10
MA0135.10.394701
MA0136.10.352127
MA0139.19.59429e-05
MA0140.10.956511
MA0141.10.0342585
MA0142.11.82941
MA0143.11.46403
MA0144.10.0207032
MA0145.10.000223422
MA0146.15.74256e-10
MA0147.10.00475429
MA0148.10.877882
MA0149.10.124673
MA0062.21.40977e-05
MA0035.20.979465
MA0039.22.98635e-07
MA0138.20.216338
MA0002.20.0348607
MA0137.20.00391464
MA0104.20.00236586
MA0047.20.235171
MA0112.22.8297e-05
MA0065.20.0156
MA0150.10.517077
MA0151.10
MA0152.10.924538
MA0153.10.415807
MA0154.10.116664
MA0155.10.000618461
MA0156.10.010784
MA0157.10.287991
MA0158.10
MA0159.10.364199
MA0160.10.0335038
MA0161.10
MA0162.11.84473e-06
MA0163.13.54244e-10
MA0164.11.11626
MA0080.20.0490151
MA0018.20.0982118
MA0099.20.402424
MA0079.20
MA0102.20.538869
MA0258.10.0285833
MA0259.10.0427027
MA0442.10
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