Personal tools

MCL coexpression mm9:109: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000014!4.50e-21!5;UBERON:0001003!4.50e-21!5;UBERON:0002097!4.50e-21!5;UBERON:0002199!4.50e-21!5;UBERON:0007029!4.50e-21!5;UBERON:0007376!4.50e-21!5;UBERON:0002416!4.50e-21!5;UBERON:0007383!4.50e-21!5;UBERON:0000945!8.39e-11!16;UBERON:0010039!8.39e-11!16;UBERON:0003102!9.25e-11!22;UBERON:0000996!1.56e-08!1;UBERON:0001723!1.84e-08!1;UBERON:0001033!1.84e-08!1;UBERON:0010056!1.84e-08!1
|ontology_enrichment_uberon=UBERON:0000014!4.50e-21!5;UBERON:0001003!4.50e-21!5;UBERON:0002097!4.50e-21!5;UBERON:0002199!4.50e-21!5;UBERON:0007029!4.50e-21!5;UBERON:0007376!4.50e-21!5;UBERON:0002416!4.50e-21!5;UBERON:0007383!4.50e-21!5;UBERON:0000945!8.39e-11!16;UBERON:0010039!8.39e-11!16;UBERON:0003102!9.25e-11!22;UBERON:0000996!1.56e-08!1;UBERON:0001723!1.84e-08!1;UBERON:0001033!1.84e-08!1;UBERON:0010056!1.84e-08!1
|tfbs_overrepresentation_for_novel_motifs=0.0354966,0.110523,0.0568158,0.226374,0.528807,0.256447,0.0239119,1.23892,1.1643,0.00801486,0.0479417,0.0660297,0.720721,0.18113,0.156122,0,0.029632,0.633472,0.724622,0.277114,3.65371,0.0587055,0.0269536,1.27712,0.327924,0.103578,0.233475,0.303575,0.0831732,0.496673,0.0303182,0.0562608,0.103525,0.155903,0.0108191,2.1949,0.00032171,0.271417,0.154214,2.09791,0.267136,0.0810629,0.291851,0.818869,0.14361,0.00512209,0.188362,0.103633,1.20381,0.234796,0.267079,0.262886,0.34642,0.358415,0.379701,0.0875844,0.525123,0.134766,1.78952,0.0286658,0.0501549,0.13606,0.478107,0.0239332,0.206813,0.308708,0.561937,0.440889,0.410628,0.327464,0.00564795,1.76395,1.67671e-07,1.35069,0.000196939,0.329035,0.724483,0.0668001,1.06909,0.331175,0.785555,0.910875,0.729246,0.0721415,0.0836935,1.63249e-10,0.00249472,0.00284278,0.0163966,0.576502,0.235852,0.0856707,0.47544,0.727385,0.000597869,0.864478,0.249128,0.061307,0.0157411,0.615709,0.143069,0.205677,0.337658,0.267898,0.266448,0.00900235,0.0393757,0.331739,0.141544,0.00409119,0.235478,0.339758,1.32435,0.119309,1.25409,0.496306,0.000331987,0.234013,0.0299092,1.76227,0.428969,0.42892,0.39432,0.345108,0.75903,0.0462821,0.319775,0.058179,1.06523,0.0218419,0.0959713,0.341921,0.996173,1.91367,0.708327,0.077665,1.94506,0.885018,0.222709,0.910588,0.549147,1.07995,0.422942,0.816209,0.105469,0.032475,0.191973,0.873408,0.422338,0.0024963,0.25028,3.52307e-12,0.360309,0.254371,0.372445,0.464349,0.0459256,0.0138444,1.83765,0.000438932,0.228761,0.0833561,2.59918,0.927843,0.766522,0.0916013,0.0250997,0.449248,1.98442e-06
}}
}}

Revision as of 17:49, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:18573373..18573424,+p@chr10:18573373..18573424
+
Mm9::chr10:18575593..18575622,+p@chr10:18575593..18575622
+
Mm9::chr11:100064502..100064515,-p@chr11:100064502..100064515
-
Mm9::chr11:100064533..100064562,-p@chr11:100064533..100064562
-
Mm9::chr11:100065595..100065616,-p@chr11:100065595..100065616
-
Mm9::chr11:100066063..100066077,+p@chr11:100066063..100066077
+
Mm9::chr11:100068633..100068668,-p@chr11:100068633..100068668
-
Mm9::chr11:100068716..100068750,-p@chr11:100068716..100068750
-
Mm9::chr11:100068821..100068840,-p1@Krt14
Mm9::chr11:100068968..100068978,-p5@Krt14
Mm9::chr11:100107430..100107473,-p@chr11:100107430..100107473
-
Mm9::chr11:100107526..100107540,-p@chr11:100107526..100107540
-
Mm9::chr11:100108943..100108977,-p@chr11:100108943..100108977
-
Mm9::chr11:100110267..100110283,-p1@Krt16
Mm9::chr11:100273200..100273209,-p6@Leprel4
Mm9::chr11:83882056..83882106,-p3@Dusp14
Mm9::chr11:83882268..83882279,-p8@Dusp14
Mm9::chr11:99981744..99981754,-p@chr11:99981744..99981754
-
Mm9::chr12:74826863..74826866,-p@chr12:74826863..74826866
-
Mm9::chr12:75002306..75002311,+p10@Hif1a
Mm9::chr12:75002335..75002352,+p7@Hif1a
Mm9::chr12:75002357..75002378,+p6@Hif1a
Mm9::chr12:75002389..75002406,+p4@Hif1a
Mm9::chr12:75002422..75002429,+p11@Hif1a
Mm9::chr12:75003625..75003628,+p@chr12:75003625..75003628
+
Mm9::chr12:89223836..89223840,+p@chr12:89223836..89223840
+
Mm9::chr14:31973221..31973260,-p@chr14:31973221..31973260
-
Mm9::chr14:56380222..56380238,+p2@Ltb4r2
Mm9::chr14:56380245..56380273,+p1@Ltb4r2
Mm9::chr15:101458679..101458683,-p1@Gm5414
Mm9::chr15:101506516..101506534,-p@chr15:101506516..101506534
-
Mm9::chr15:101506711..101506719,-p@chr15:101506711..101506719
-
Mm9::chr15:101506878..101506897,-p@chr15:101506878..101506897
-
Mm9::chr15:101506963..101506974,+p@chr15:101506963..101506974
+
Mm9::chr15:101510712..101510729,-p1@Krt6b
Mm9::chr15:101520387..101520420,-p@chr15:101520387..101520420
-
Mm9::chr15:101520635..101520643,-p@chr15:101520635..101520643
-
Mm9::chr15:101520809..101520823,-p@chr15:101520809..101520823
-
Mm9::chr15:101520894..101520913,+p@chr15:101520894..101520913
+
Mm9::chr15:101520939..101520945,-p@chr15:101520939..101520945
-
Mm9::chr15:101522998..101523006,-p@chr15:101522998..101523006
-
Mm9::chr15:101524277..101524311,-p@chr15:101524277..101524311
-
Mm9::chr15:101524730..101524749,-p1@Krt6a
Mm9::chr15:101540147..101540184,-p@chr15:101540147..101540184
-
Mm9::chr15:101542025..101542038,+p@chr15:101542025..101542038
+
Mm9::chr15:101543328..101543342,-p1@Krt5
Mm9::chr17:24172292..24172300,+p@chr17:24172292..24172300
+
Mm9::chr17:24175203..24175216,+p1@Prss27
Mm9::chr17:27866019..27866031,-p2@Spdef
Mm9::chr17:35692992..35692999,+p@chr17:35692992..35692999
+
Mm9::chr17:35763579..35763584,-p1@Gm9573
Mm9::chr17:47573596..47573607,+p3@AI661453
Mm9::chr18:20217790..20217799,-p8@Dsc2
Mm9::chr18:20217999..20218020,-p2@Dsc2
Mm9::chr18:20260418..20260433,-p@chr18:20260418..20260433
-
Mm9::chr18:35502686..35502690,-p@chr18:35502686..35502690
-
Mm9::chr18:64859665..64859669,+p@chr18:64859665..64859669
+
Mm9::chr18:73894503..73894506,-p@chr18:73894503..73894506
-
Mm9::chr19:29939712..29939747,-p@chr19:29939712..29939747
-
Mm9::chr1:137715387..137715411,+p3@Lad1
Mm9::chr2:120911469..120911480,-p2@Tgm5
Mm9::chr2:26134224..26134229,+p@chr2:26134224..26134229
+
Mm9::chr2:6215389..6215395,+p@chr2:6215389..6215395
+
Mm9::chr3:120909250..120909282,-p@chr3:120909250..120909282
-
Mm9::chr3:90529809..90529831,+p@chr3:90529809..90529831
+
Mm9::chr3:92143054..92143068,+p1@Sprr2d
Mm9::chr3:92156063..92156066,+p2@Sprr2e
Mm9::chr3:92177769..92177780,+p3@Sprr2g
Mm9::chr3:92177797..92177815,+p2@Sprr2g
Mm9::chr3:92177830..92177843,+p1@Sprr2g
Mm9::chr3:92242693..92242708,-p1@Sprr1b
Mm9::chr3:92288334..92288341,-p@chr3:92288334..92288341
-
Mm9::chr3:92288406..92288413,-p@chr3:92288406..92288413
-
Mm9::chr3:92288582..92288593,-p@chr3:92288582..92288593
-
Mm9::chr3:92761308..92761311,+p@chr3:92761308..92761311
+
Mm9::chr3:95514619..95514622,-p@chr3:95514619..95514622
-
Mm9::chr3:96422520..96422551,+p@chr3:96422520..96422551
+
Mm9::chr4:118780583..118780603,-p@chr4:118780583..118780603
-
Mm9::chr4:138419516..138419520,-p14@Pla2g5
Mm9::chr4:56445929..56445936,-p@chr4:56445929..56445936
-
Mm9::chr4:88587941..88587957,-p@chr4:88587941..88587957
-
Mm9::chr5:86756768..86756782,-p2@Tmprss11d
Mm9::chr5:86802426..86802432,-p4@Tmprss11d
Mm9::chr5:86802438..86802453,-p1@Tmprss11d
Mm9::chr5:86802463..86802475,-p3@Tmprss11d
Mm9::chr5:86802562..86802592,-p6@Tmprss11d
Mm9::chr5:86947574..86947586,-p4@Tmprss11g
Mm9::chr5:86947587..86947602,-p2@Tmprss11g
Mm9::chr5:86947603..86947635,-p1@Tmprss11g
Mm9::chr5:86947641..86947652,-p5@Tmprss11g
Mm9::chr5:86947702..86947715,-p3@Tmprss11g
Mm9::chr5:87105335..87105345,-p2@Tmprss11bnl
Mm9::chr5:87105353..87105360,-p3@Tmprss11bnl
Mm9::chr5:87105371..87105394,-p1@Tmprss11bnl
Mm9::chr5:88697948..88697959,+p1@Gm7714
Mm9::chr6:119339040..119339049,-p6@Adipor2
Mm9::chr7:117914140..117914147,+p@chr7:117914140..117914147
+
Mm9::chr7:123747566..123747567,+p@chr7:123747566..123747567
+
Mm9::chr7:25425218..25425236,+p@chr7:25425218..25425236
+
Mm9::chr7:50927615..50927622,-p@chr7:50927615..50927622
-
Mm9::chr7:50968588..50968602,+p@chr7:50968588..50968602
+
Mm9::chr7:51011533..51011538,-p1@ENSMUST00000147618
Mm9::chr7:51024351..51024361,+p3@Klk12
Mm9::chr7:51170510..51170517,+p@chr7:51170510..51170517
+
Mm9::chr8:113329332..113329352,+p1@ENSMUST00000157018
Mm9::chr8:26907544..26907549,-p@chr8:26907544..26907549
-
Mm9::chr9:110904395..110904401,-p@chr9:110904395..110904401
-
Mm9::chr9:121960329..121960336,-p@chr9:121960329..121960336
-
Mm9::chr9:8752254..8752260,-p@chr9:8752254..8752260
-


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:0008544epidermis development1.81681501959467e-11
GO:0007398ectoderm development1.81681501959467e-11
GO:0031424keratinization2.93978948384578e-11
GO:0009913epidermal cell differentiation1.20221321138584e-10
GO:0009888tissue development6.11320105929337e-10
GO:0048730epidermis morphogenesis6.83697324301183e-10
GO:0048729tissue morphogenesis8.28494904748731e-09
GO:0005200structural constituent of cytoskeleton1.93321599581571e-08
GO:0001533cornified envelope1.96932528023369e-07
GO:0005856cytoskeleton5.04996550374379e-06
GO:0005882intermediate filament5.04996550374379e-06
GO:0045111intermediate filament cytoskeleton5.24804569852866e-06
GO:0045104intermediate filament cytoskeleton organization and biogenesis1.94313949870611e-05
GO:0045103intermediate filament-based process3.01822201922357e-05
GO:0009653anatomical structure morphogenesis3.07882269222828e-05
GO:0007566embryo implantation3.07882269222828e-05
GO:0030216keratinocyte differentiation3.85283110982844e-05
GO:0048513organ development0.000112838955055719
GO:0042698menstrual cycle0.000189911441538527
GO:0007565female pregnancy0.000194515263950349
GO:0043232intracellular non-membrane-bound organelle0.000209565456599115
GO:0043228non-membrane-bound organelle0.000209565456599115
GO:0048731system development0.000485282087936337
GO:0045109intermediate filament organization0.000538209729911624
GO:0048609reproductive process in a multicellular organism0.000784637432670585
GO:0032504multicellular organism reproduction0.000784637432670585
GO:0007010cytoskeleton organization and biogenesis0.00133871346094242
GO:0048856anatomical structure development0.00133871346094242
GO:0044430cytoskeletal part0.00253027625670361
GO:0007275multicellular organismal development0.00297855215607944
GO:0004252serine-type endopeptidase activity0.0111596205801113
GO:0017171serine hydrolase activity0.0127293657296882
GO:0008236serine-type peptidase activity0.0127293657296882
GO:0022414reproductive process0.013641497541815
GO:0048869cellular developmental process0.0149771496123552
GO:0030154cell differentiation0.0149771496123552
GO:0014850response to muscle activity0.0149771496123552
GO:0006089lactate metabolic process0.0149771496123552
GO:0043618regulation of transcription from RNA polymerase II promoter in response to stress0.0149771496123552
GO:0001632leukotriene B4 receptor activity0.0149771496123552
GO:0051546keratinocyte migration0.0149771496123552
GO:0014823response to activity0.0149771496123552
GO:0043619regulation of transcription from RNA polymerase II promoter in response to oxidative stress0.0149771496123552
GO:0051704multi-organism process0.0149771496123552
GO:0032502developmental process0.0151098792328122
GO:0043620regulation of transcription in response to stress0.0214357416666919
GO:0042541hemoglobin biosynthetic process0.0262801076194385
GO:0004974leukotriene receptor activity0.0262801076194385
GO:0045095keratin filament0.0262801076194385
GO:0030949positive regulation of vascular endothelial growth factor receptor signaling pathway0.0262801076194385
GO:0030947regulation of vascular endothelial growth factor receptor signaling pathway0.0309737210561619
GO:0045648positive regulation of erythrocyte differentiation0.0309737210561619
GO:0020027hemoglobin metabolic process0.0309737210561619
GO:0003810protein-glutamine gamma-glutamyltransferase activity0.035158035641484
GO:0018149peptide cross-linking0.035158035641484
GO:0035162embryonic hemopoiesis0.035158035641484
GO:0006996organelle organization and biogenesis0.0356206582415915
GO:0042562hormone binding0.0395816223221339
GO:0002009morphogenesis of an epithelium0.0421669751630955
GO:0009755hormone-mediated signaling0.0437043314293644
GO:0046716muscle maintenance0.0475552861660067
GO:0045646regulation of erythrocyte differentiation0.0475552861660067



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
zone of skin4.50e-215
skin epidermis4.50e-215
skin of body4.50e-215
integument4.50e-215
surface4.50e-215
outer epithelium4.50e-215
integumental system4.50e-215
enveloping layer of ectoderm4.50e-215
stomach8.39e-1116
food storage organ8.39e-1116
surface structure9.25e-1122
vagina1.56e-081
tongue1.84e-081
gustatory system1.84e-081
future tongue1.84e-081


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}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:109&oldid=2561329"