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MCL coexpression mm9:77: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0986886653414259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0917293418104957,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.112180027992754,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0330701536979448,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194151474984939,0.27809005835595,0.261808060351695,0.294963273112386,0.264441172036141,0.371372501488558,0.422097383489776,0.713199822579696,0.856529595978746,0.501642097948899,0.332866488534905,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0986886653414259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0917293418104957,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.112180027992754,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0330701536979448,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194151474984939,0.27809005835595,0.261808060351695,0.294963273112386,0.264441172036141,0.371372501488558,0.422097383489776,0.713199822579696,0.856529595978746,0.501642097948899,0.332866488534905,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0048563;post-embryonic organ morphogenesis;0.0042978561820403;17921,22295!GO:0048569;post-embryonic organ development;0.0042978561820403;17921,22295!GO:0060122;inner ear receptor stereocilium organization and biogenesis;0.0042978561820403;17921,22295!GO:0060088;auditory receptor cell stereocilium organization and biogenesis;0.0042978561820403;17921,22295!GO:0002093;auditory receptor cell morphogenesis;0.0042978561820403;17921,22295!GO:0032420;stereocilium;0.0042978561820403;17921,22295!GO:0060119;inner ear receptor cell development;0.0042978561820403;17921,22295!GO:0009886;post-embryonic morphogenesis;0.0042978561820403;17921,22295!GO:0060117;auditory receptor cell development;0.0042978561820403;17921,22295!GO:0032421;stereocilium bundle;0.00620112189091778;17921,22295!GO:0005902;microvillus;0.0168900456627893;17921,22295!GO:0007530;sex determination;0.026389433366329;242523,50796!GO:0042491;auditory receptor cell differentiation;0.026389433366329;17921,22295!GO:0001890;placenta development;0.0315729769951657;12705,56096!GO:0060113;inner ear receptor cell differentiation;0.0315729769951657;17921,22295!GO:0009791;post-embryonic development;0.0381999209935209;17921,22295!GO:0042490;mechanoreceptor differentiation;0.0381999209935209;17921,22295!GO:0032426;stereocilium bundle tip;0.0381999209935209;22295!GO:0001845;phagolysosome formation;0.0381999209935209;17921!
|gostat_on_MCL_coexpression=GO:0048563;post-embryonic organ morphogenesis;0.0042978561820403;17921,22295!GO:0048569;post-embryonic organ development;0.0042978561820403;17921,22295!GO:0060122;inner ear receptor stereocilium organization and biogenesis;0.0042978561820403;17921,22295!GO:0060088;auditory receptor cell stereocilium organization and biogenesis;0.0042978561820403;17921,22295!GO:0002093;auditory receptor cell morphogenesis;0.0042978561820403;17921,22295!GO:0032420;stereocilium;0.0042978561820403;17921,22295!GO:0060119;inner ear receptor cell development;0.0042978561820403;17921,22295!GO:0009886;post-embryonic morphogenesis;0.0042978561820403;17921,22295!GO:0060117;auditory receptor cell development;0.0042978561820403;17921,22295!GO:0032421;stereocilium bundle;0.00620112189091778;17921,22295!GO:0005902;microvillus;0.0168900456627893;17921,22295!GO:0007530;sex determination;0.026389433366329;242523,50796!GO:0042491;auditory receptor cell differentiation;0.026389433366329;17921,22295!GO:0001890;placenta development;0.0315729769951657;12705,56096!GO:0060113;inner ear receptor cell differentiation;0.0315729769951657;17921,22295!GO:0009791;post-embryonic development;0.0381999209935209;17921,22295!GO:0042490;mechanoreceptor differentiation;0.0381999209935209;17921,22295!GO:0032426;stereocilium bundle tip;0.0381999209935209;22295!GO:0001845;phagolysosome formation;0.0381999209935209;17921!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000991!2.81e-54!18;UBERON:0005564!2.81e-54!18;UBERON:0000473!1.20e-50!14;UBERON:0004176!3.96e-49!17;UBERON:0009196!3.96e-49!17;UBERON:0009117!3.96e-49!17;UBERON:0003135!3.38e-47!15;UBERON:0003101!3.51e-44!16;UBERON:0000079!3.51e-44!16;UBERON:0003133!2.15e-40!24;UBERON:0005156!3.48e-37!26;UBERON:0000990!3.48e-37!26;UBERON:0002323!1.00e-25!37;UBERON:0004458!1.00e-25!37;UBERON:0003886!5.19e-25!38;UBERON:0002553!2.47e-24!39;UBERON:0000464!3.48e-16!57;UBERON:0000466!3.07e-11!79;UBERON:0000926!4.43e-08!120;UBERON:0004120!4.43e-08!120;UBERON:0006603!4.43e-08!120
}}
}}

Revision as of 21:13, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127031444..127031494,-p@chr10:127031444..127031494
-
Mm9::chr10:128142003..128142031,-p2@Cdk2
Mm9::chr10:59917695..59917696,-p@chr10:59917695..59917696
-
Mm9::chr10:60149960..60149980,-p2@Cdh23
Mm9::chr10:60149981..60150019,-p1@Cdh23
Mm9::chr11:100940503..100940515,+p@chr11:100940503..100940515
+
Mm9::chr11:101501360..101501365,+p@chr11:101501360..101501365
+
Mm9::chr11:116488182..116488189,-p6@Rhbdf2
Mm9::chr11:116488239..116488251,-p5@Rhbdf2
Mm9::chr11:116488265..116488274,-p7@Rhbdf2
Mm9::chr11:119251253..119251273,+p@chr11:119251253..119251273
+
Mm9::chr11:69431091..69431096,-p@chr11:69431091..69431096
-
Mm9::chr11:69431224..69431241,-p@chr11:69431224..69431241
-
Mm9::chr11:69431363..69431375,-p2@Shbg
Mm9::chr11:69431381..69431428,-p1@Shbg
Mm9::chr11:69431571..69431587,-p3@Shbg
Mm9::chr11:69790154..69790170,+p@chr11:69790154..69790170
+
Mm9::chr11:78218202..78218234,+p@chr11:78218202..78218234
+
Mm9::chr12:113643935..113643944,-p1@uc007peo.1
Mm9::chr12:113959316..113959338,+p@chr12:113959316..113959338
+
Mm9::chr12:77084655..77084667,+p@chr12:77084655..77084667
+
Mm9::chr12:98362518..98362551,+p@chr12:98362518..98362551
+
Mm9::chr13:23585701..23585712,+p@chr13:23585701..23585712
+
Mm9::chr13:23585714..23585726,+p@chr13:23585714..23585726
+
Mm9::chr13:28646737..28646783,-p@chr13:28646737..28646783
-
Mm9::chr13:61814335..61814358,+p@chr13:61814335..61814358
+
Mm9::chr14:26407154..26407166,-p@chr14:26407154..26407166
-
Mm9::chr14:27258701..27258722,-p3@Slmap
Mm9::chr14:27258741..27258755,-p12@Slmap
Mm9::chr14:59989377..59989392,-p@chr14:59989377..59989392
-
Mm9::chr14:67443254..67443273,-p@chr14:67443254..67443273
-
Mm9::chr14:67443459..67443465,-p@chr14:67443459..67443465
-
Mm9::chr15:25585018..25585027,+p@chr15:25585018..25585027
+
Mm9::chr15:35984598..35984624,-p@chr15:35984598..35984624
-
Mm9::chr15:51871501..51871511,+p4@Aard
Mm9::chr15:51871693..51871707,+p1@Aard
Mm9::chr15:51871941..51871952,+p@chr15:51871941..51871952
+
Mm9::chr15:51876435..51876439,+p@chr15:51876435..51876439
+
Mm9::chr15:76701495..76701535,-p3@Zfp251
Mm9::chr15:81602721..81602750,+p@chr15:81602721..81602750
+
Mm9::chr16:8425197..8425237,-p1@Cldn26
Mm9::chr16:8425243..8425254,-p2@Cldn26
Mm9::chr17:13102747..13102763,-p2@Pnldc1
Mm9::chr17:24162200..24162206,-p@chr17:24162200..24162206
-
Mm9::chr17:29080780..29080785,-p@chr17:29080780..29080785
-
Mm9::chr17:31696505..31696520,-p@chr17:31696505..31696520
-
Mm9::chr17:34818349..34818361,+p@chr17:34818349..34818361
+
Mm9::chr17:66798772..66798782,-p6@1110012J17Rik
Mm9::chr18:11054060..11054072,+p@chr18:11054060..11054072
+
Mm9::chr18:12649322..12649329,+p@chr18:12649322..12649329
+
Mm9::chr18:23511089..23511115,+p@chr18:23511089..23511115
+
Mm9::chr18:23511116..23511121,+p@chr18:23511116..23511121
+
Mm9::chr18:74019020..74019053,+p1@Mro
Mm9::chr18:81057653..81057661,-p@chr18:81057653..81057661
-
Mm9::chr18:81057675..81057691,-p@chr18:81057675..81057691
-
Mm9::chr18:81057693..81057702,-p@chr18:81057693..81057702
-
Mm9::chr19:20566707..20566731,+p4@E030003E18Rik
Mm9::chr19:25580110..25580163,+p1@Dmrt1
Mm9::chr19:25580226..25580261,+p2@Dmrt1
Mm9::chr19:25580272..25580305,+p3@Dmrt1
Mm9::chr19:25580323..25580335,+p5@Dmrt1
Mm9::chr19:25673985..25673986,+p@chr19:25673985..25673986
+
Mm9::chr19:25677680..25677685,+p@chr19:25677680..25677685
+
Mm9::chr19:37611485..37611488,+p@chr19:37611485..37611488
+
Mm9::chr19:45151126..45151134,+p@chr19:45151126..45151134
+
Mm9::chr1:129216704..129216743,+p@chr1:129216704..129216743
+
Mm9::chr1:135261699..135261712,+p10@Etnk2
Mm9::chr1:135261724..135261733,+p11@Etnk2
Mm9::chr1:135261737..135261767,+p6@Etnk2
Mm9::chr1:182312504..182312531,+p@chr1:182312504..182312531
+
Mm9::chr1:63154602..63154606,-p@chr1:63154602..63154606
-
Mm9::chr1:94965256..94965296,-p5@Kif1a
Mm9::chr2:148661069..148661070,+p@chr2:148661069..148661070
+
Mm9::chr2:157249626..157249648,+p8@Src
Mm9::chr2:157249649..157249680,+p4@Src
Mm9::chr2:180570900..180570903,+p1@ENSMUST00000139338
Mm9::chr2:31332380..31332388,+p@chr2:31332380..31332388
+
Mm9::chr2:69659733..69659753,+p10@Klhl23
Mm9::chr3:107746250..107746266,-p4@Gstm6
Mm9::chr3:107746267..107746278,-p6@Gstm6
Mm9::chr3:107746281..107746297,-p5@Gstm6
Mm9::chr3:107746308..107746339,-p3@Gstm6
Mm9::chr3:107787547..107787558,-p@chr3:107787547..107787558
-
Mm9::chr3:156433846..156433880,+p@chr3:156433846..156433880
+
Mm9::chr3:54438548..54438551,-p@chr3:54438548..54438551
-
Mm9::chr3:89763040..89763052,-p@chr3:89763040..89763052
-
Mm9::chr3:89763068..89763078,-p@chr3:89763068..89763078
-
Mm9::chr4:131477065..131477075,+p@chr4:131477065..131477075
+
Mm9::chr4:131477113..131477122,+p@chr4:131477113..131477122
+
Mm9::chr4:14548939..14548944,-p7@Slc26a7
Mm9::chr4:14548955..14548966,-p3@Slc26a7
Mm9::chr4:151370222..151370352,-p1@Phf13
Mm9::chr4:89354863..89354871,+p3@Dmrta1
Mm9::chr4:97444733..97444762,-p2@E130114P18Rik
Mm9::chr4:98787937..98787946,-p8@Dock7
Mm9::chr4:98787958..98787969,-p7@Dock7
Mm9::chr5:36664284..36664297,-p@chr5:36664284..36664297
-
Mm9::chr5:37482722..37482762,+p@chr5:37482722..37482762
+
Mm9::chr6:145902097..145902104,+p3@Sspn
Mm9::chr6:25639294..25639305,-p@chr6:25639294..25639305
-
Mm9::chr6:25639315..25639339,-p@chr6:25639315..25639339
-
Mm9::chr6:43628976..43628977,-p@chr6:43628976..43628977
-
Mm9::chr6:72577523..72577546,+p@chr6:72577523..72577546
+
Mm9::chr6:82687274..82687298,-p@chr6:82687274..82687298
-
Mm9::chr6:83138885..83138888,+p22@Dctn1
Mm9::chr6:83138889..83138897,+p15@Dctn1
Mm9::chr6:83139055..83139074,+p7@Dctn1
Mm9::chr6:89046167..89046172,+p3@4933427D06Rik
Mm9::chr7:104599942..104599951,+p7@Kctd14
Mm9::chr7:105246182..105246199,-p@chr7:105246182..105246199
-
Mm9::chr7:137497839..137497868,-p1@ENSMUST00000121836
Mm9::chr7:147143936..147143939,-p1@Mir202
Mm9::chr7:149469113..149469118,+p@chr7:149469113..149469118
+
Mm9::chr7:149469129..149469146,+p@chr7:149469129..149469146
+
Mm9::chr7:149469159..149469170,+p@chr7:149469159..149469170
+
Mm9::chr7:20074394..20074416,+p1@Exoc3l2
Mm9::chr7:20074432..20074443,+p2@Exoc3l2
Mm9::chr7:27959600..27959622,-p3@Rab4b
Mm9::chr7:29680133..29680138,+p@chr7:29680133..29680138
+
Mm9::chr7:29680196..29680209,+p@chr7:29680196..29680209
+
Mm9::chr7:29680238..29680247,+p@chr7:29680238..29680247
+
Mm9::chr7:29680256..29680276,+p@chr7:29680256..29680276
+
Mm9::chr7:31751373..31751390,-p@chr7:31751373..31751390
-
Mm9::chr7:52553576..52553586,-p@chr7:52553576..52553586
-
Mm9::chr7:5996770..5996799,+p1@Nlrp4c
Mm9::chr8:26314291..26314315,-p@chr8:26314291..26314315
-
Mm9::chr8:26314330..26314348,-p@chr8:26314330..26314348
-
Mm9::chr8:26314366..26314395,-p@chr8:26314366..26314395
-
Mm9::chr8:3360804..3360809,+p@chr8:3360804..3360809
+
Mm9::chr8:3360842..3360856,+p@chr8:3360842..3360856
+
Mm9::chr8:72346053..72346064,+p4@Lpar2
Mm9::chr8:97519583..97519594,+p@chr8:97519583..97519594
+
Mm9::chr9:110283445..110283453,+p@chr9:110283445..110283453
+
Mm9::chr9:120652312..120652318,-p@chr9:120652312..120652318
-
Mm9::chr9:56773731..56773737,-p@chr9:56773731..56773737
-
Mm9::chr9:57982851..57982885,+p4@Stra6
Mm9::chr9:57982887..57982909,+p6@Stra6
Mm9::chr9:58589350..58589387,-p1@2410076I21Rik
Mm9::chr9:74852168..74852181,+p@chr9:74852168..74852181
+
Mm9::chrX:137135036..137135064,-p4@Tsc22d3
Mm9::chrX:147956895..147956927,+p3@Phf8
Mm9::chrX:16828421..16828449,-p@chrX:16828421..16828449
-
Mm9::chrX:16828671..16828684,+p@chrX:16828671..16828684
+
Mm9::chrX:35231684..35231689,-p@chrX:35231684..35231689
-
Mm9::chrX:35231698..35231710,-p@chrX:35231698..35231710
-
Mm9::chrX:35231739..35231742,-p@chrX:35231739..35231742
-
Mm9::chrX:35231763..35231779,-p@chrX:35231763..35231779
-
Mm9::chrX:35231992..35231997,-p@chrX:35231992..35231997
-
Mm9::chrX:35232004..35232025,-p@chrX:35232004..35232025
-
Mm9::chrX:50141463..50141473,+p@chrX:50141463..50141473
+
Mm9::chrX:50141493..50141496,+p@chrX:50141493..50141496
+
Mm9::chrX:50141513..50141525,+p@chrX:50141513..50141525
+
Mm9::chrX:50562951..50562977,-p3@Plac1
Mm9::chrX:50562997..50563011,-p6@Plac1
Mm9::chrX:50788121..50788126,+p5@Etd
Mm9::chrX:66668487..66668514,+p@chrX:66668487..66668514
+
Mm9::chrX:70647033..70647048,-p@chrX:70647033..70647048
-
Mm9::chrX:70647050..70647062,-p@chrX:70647050..70647062
-
Mm9::chrX:71422564..71422575,+p2@Tktl1
Mm9::chrX:83600287..83600330,-p1@Gm41
Mm9::chrX:91213988..91214014,+p1@AU015836
Mm9::chrX:93160409..93160432,-p@chrX:93160409..93160432
-
Mm9::chrX:98254994..98255003,-p3@Tex11
Mm9::chrX:99446279..99446298,-p4@Cited1
Mm9::chrX:9993766..9993788,+p@chrX:9993766..9993788
+
Mm9::chrX:9993801..9993808,+p@chrX:9993801..9993808
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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:0048563post-embryonic organ morphogenesis0.0042978561820403
GO:0048569post-embryonic organ development0.0042978561820403
GO:0060122inner ear receptor stereocilium organization and biogenesis0.0042978561820403
GO:0060088auditory receptor cell stereocilium organization and biogenesis0.0042978561820403
GO:0002093auditory receptor cell morphogenesis0.0042978561820403
GO:0032420stereocilium0.0042978561820403
GO:0060119inner ear receptor cell development0.0042978561820403
GO:0009886post-embryonic morphogenesis0.0042978561820403
GO:0060117auditory receptor cell development0.0042978561820403
GO:0032421stereocilium bundle0.00620112189091778
GO:0005902microvillus0.0168900456627893
GO:0007530sex determination0.026389433366329
GO:0042491auditory receptor cell differentiation0.026389433366329
GO:0001890placenta development0.0315729769951657
GO:0060113inner ear receptor cell differentiation0.0315729769951657
GO:0009791post-embryonic development0.0381999209935209
GO:0042490mechanoreceptor differentiation0.0381999209935209
GO:0032426stereocilium bundle tip0.0381999209935209
GO:0001845phagolysosome formation0.0381999209935209



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)

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