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MCL coexpression mm9:72: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=CL:0000068!3.67e-34!3;CL:0002202!3.67e-34!3;CL:0000069!3.67e-34!3;CL:0002632!3.67e-34!3;CL:0002368!3.67e-34!3;CL:0000307!3.67e-34!3;CL:0000377!3.67e-34!3;CL:0002076!2.17e-07!15
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003126!3.67e-34!3;UBERON:0001005!3.67e-34!3;UBERON:0007196!3.67e-34!3;UBERON:0001558!3.67e-34!3;UBERON:0000162!2.41e-15!3;UBERON:0001353!2.41e-15!3;UBERON:0000163!2.41e-15!3;UBERON:0006866!2.41e-15!3;UBERON:0001046!2.41e-15!3;UBERON:0000164!2.41e-15!3;UBERON:0000931!2.41e-15!3;UBERON:0000996!2.59e-12!1;UBERON:0001255!7.11e-12!1;UBERON:0001556!7.11e-12!1;UBERON:0003975!1.20e-09!5;UBERON:0000161!1.33e-09!5;UBERON:0004122!1.33e-09!5
|tfbs_overrepresentation_for_novel_motifs=0.181479,0.587134,0.187445,0.301171,0.504922,0.243218,0.167004,0.227097,0.629759,0.11273,0.912705,0.685481,0.0685553,0.188724,0.233716,0,0.0749431,0.0268632,0.324529,0.111861,0.820848,0.539847,0.0229412,0.392376,0.400222,0.734758,0.922485,0.303566,0.0191565,0.0528859,0.0295002,0.0584909,0.142324,0.387927,0.313603,7.95898e-06,0.0105188,0.347563,0.746387,0.0106539,0.220256,0.0640415,0.381457,0.0528715,0.369005,0.179735,0.172544,0.35384,0.505853,0.376687,0.146666,0.0170847,0.101434,0.331482,0.641444,0.117254,0.323295,0.127858,0.790473,0.0249728,0.2818,0.110978,0.356769,0.253178,0.131681,1.06143,0.590533,0.270864,0.725313,0.1791,0.0157027,0.0241549,0.000310363,0.410049,0.00326266,0.559401,0.387279,0.156926,1.31831,0.556879,0.0841568,0.542557,0.483488,0.0794401,0.460439,0.000366342,2.66569e-07,0.262364,0.0367028,1.0083,0.111638,1.11043,0.0642798,0.810376,0.0625422,0.084276,0.838411,0.342283,0.172905,0.37627,0.991089,0.532498,0.561123,0.666958,0.272478,0.00484115,0.00674169,0.146492,0.0466752,0.000548342,0.105983,0.0322344,0.0235614,0.280857,0.367992,1.5317,0.029309,0.139136,0.30868,0.551358,0.736258,0.555704,0.0775041,1.42142,0.140865,0.0449576,0.424246,0.548598,0.990513,0.570318,0.834654,0.523359,0.0712789,0.354817,0.124894,0.0122495,0.202602,0.542738,0.102619,0.698016,0.364167,1.00796,0.592315,0.333191,0.13899,0.27829,1.20827,0.662649,0.0479118,0.0348924,0.00453011,2.09074e-05,0.333784,0.0983127,0.352186,0.211773,0.306409,0.101802,0.618028,0.0232021,0.346737,0.458687,0.261197,0.159696,1.17536,0.331506,0.828731,0.501277,0.00845263
}}

Latest revision as of 14:38, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:74636711..74636725,+p2@Bcr
Mm9::chr11:100002128..100002131,+p@chr11:100002128..100002131
+
Mm9::chr11:100002209..100002231,+p@chr11:100002209..100002231
+
Mm9::chr11:100002237..100002272,+p@chr11:100002237..100002272
+
Mm9::chr11:100002314..100002327,+p@chr11:100002314..100002327
+
Mm9::chr11:100002838..100002881,+p@chr11:100002838..100002881
+
Mm9::chr11:100002992..100003004,-p@chr11:100002992..100003004
-
Mm9::chr11:100006864..100006873,+p@chr11:100006864..100006873
+
Mm9::chr11:29642912..29642916,-p@chr11:29642912..29642916
-
Mm9::chr11:4164303..4164316,+p@chr11:4164303..4164316
+
Mm9::chr11:4165247..4165267,+p@chr11:4165247..4165267
+
Mm9::chr11:4166670..4166676,+p4@Lif
Mm9::chr11:51981619..51981639,-p@chr11:51981619..51981639
-
Mm9::chr11:59120422..59120437,+p1@Wnt9a
Mm9::chr11:62656257..62656262,+p@chr11:62656257..62656262
+
Mm9::chr11:70027607..70027634,+p1@Slc16a11
Mm9::chr11:70027638..70027664,+p3@Slc16a11
Mm9::chr11:86461733..86461747,-p@chr11:86461733..86461747
-
Mm9::chr11:94938259..94938265,+p@chr11:94938259..94938265
+
Mm9::chr11:94958540..94958582,+p@chr11:94958540..94958582
+
Mm9::chr11:96608719..96608730,-p1@ENSMUST00000170876
p1@uc011ydj.1
Mm9::chr11:96608733..96608746,-p1@ENSMUST00000166907
Mm9::chr11:96608968..96608974,-p2@ENSMUST00000166907
Mm9::chr11:98561479..98561520,+p@chr11:98561479..98561520
+
Mm9::chr12:17549752..17549763,+p@chr12:17549752..17549763
+
Mm9::chr12:80660732..80660753,+p@chr12:80660732..80660753
+
Mm9::chr12:82732215..82732299,+p1@Ttc9
Mm9::chr12:8799233..8799252,+p@chr12:8799233..8799252
+
Mm9::chr13:115644652..115644657,-p@chr13:115644652..115644657
-
Mm9::chr13:115722144..115722156,-p3@Itga2
Mm9::chr13:115722243..115722274,-p1@Itga2
Mm9::chr13:115722278..115722317,-p2@Itga2
Mm9::chr13:115722413..115722430,+p@chr13:115722413..115722430
+
Mm9::chr13:49394171..49394182,-p7@Fgd3
Mm9::chr13:72401408..72401416,-p@chr13:72401408..72401416
-
Mm9::chr14:21662458..21662463,+p@chr14:21662458..21662463
+
Mm9::chr14:31386795..31386797,-p@chr14:31386795..31386797
-
Mm9::chr14:34905716..34905718,+p@chr14:34905716..34905718
+
Mm9::chr14:43799688..43799691,-p@chr14:43799688..43799691
-
Mm9::chr14:66120363..66120367,+p@chr14:66120363..66120367
+
Mm9::chr14:66592250..66592264,-p@chr14:66592250..66592264
-
Mm9::chr14:66592291..66592317,-p@chr14:66592291..66592317
-
Mm9::chr14:66593827..66593846,-p@chr14:66593827..66593846
-
Mm9::chr14:66599823..66599861,-p@chr14:66599823..66599861
-
Mm9::chr14:66600371..66600386,-p@chr14:66600371..66600386
-
Mm9::chr14:75132109..75132181,+p1@Esd
p1@Gm2904
Mm9::chr15:101242848..101242864,+p1@Krt7
Mm9::chr15:101248779..101248798,-p@chr15:101248779..101248798
-
Mm9::chr15:101248802..101248828,-p@chr15:101248802..101248828
-
Mm9::chr15:101250936..101250949,+p@chr15:101250936..101250949
+
Mm9::chr15:101258041..101258052,+p@chr15:101258041..101258052
+
Mm9::chr15:74789738..74789763,-p@chr15:74789738..74789763
-
Mm9::chr15:74825521..74825542,-p@chr15:74825521..74825542
-
Mm9::chr15:74825821..74825827,+p@chr15:74825821..74825827
+
Mm9::chr15:99421285..99421330,-p@chr15:99421285..99421330
-
Mm9::chr15:99421567..99421581,+p1@Aqp5
Mm9::chr16:10960551..10960554,-p@chr16:10960551..10960554
-
Mm9::chr16:32641594..32641601,+p@chr16:32641594..32641601
+
Mm9::chr16:43664217..43664239,-p1@Tigit
Mm9::chr17:23812818..23812855,-p@chr17:23812818..23812855
-
Mm9::chr17:24135061..24135076,-p1@Prss22
Mm9::chr17:25885558..25885567,+p@chr17:25885558..25885567
+
Mm9::chr17:25890993..25891014,-p@chr17:25890993..25891014
-
Mm9::chr17:35195662..35195665,-p@chr17:35195662..35195665
-
Mm9::chr17:71089456..71089459,-p@chr17:71089456..71089459
-
Mm9::chr17:71105425..71105430,+p@chr17:71105425..71105430
+
Mm9::chr18:16433080..16433097,+p@chr18:16433080..16433097
+
Mm9::chr19:30033557..30033562,+p@chr19:30033557..30033562
+
Mm9::chr19:30034003..30034011,+p@chr19:30034003..30034011
+
Mm9::chr19:38171348..38171379,+p2@O3far1
Mm9::chr19:38171555..38171594,+p1@O3far1
Mm9::chr19:47583250..47583267,-p5@Obfc1
Mm9::chr19:47932377..47932386,-p@chr19:47932377..47932386
-
Mm9::chr19:47932481..47932497,+p@chr19:47932481..47932497
+
Mm9::chr19:47937865..47937876,+p7@Gsto1
Mm9::chr19:47938904..47938922,-p@chr19:47938904..47938922
-
Mm9::chr19:47938927..47938952,-p@chr19:47938927..47938952
-
Mm9::chr19:47939269..47939279,-p@chr19:47939269..47939279
-
Mm9::chr1:108303887..108303893,+p@chr1:108303887..108303893
+
Mm9::chr1:137741978..137741989,+p@chr1:137741978..137741989
+
Mm9::chr1:151947223..151947236,+p1@Ptgs2
Mm9::chr1:151954385..151954387,+p@chr1:151954385..151954387
+
Mm9::chr1:152012073..152012094,-p2@ENSMUST00000163840
Mm9::chr1:152012112..152012121,-p6@ENSMUST00000163840
Mm9::chr1:155033141..155033186,-p@chr1:155033141..155033186
-
Mm9::chr1:40556854..40556870,+p@chr1:40556854..40556870
+
Mm9::chr1:60762131..60762139,+p@chr1:60762131..60762139
+
Mm9::chr1:72429924..72429941,+p@chr1:72429924..72429941
+
Mm9::chr2:102653606..102653626,-p@chr2:102653606..102653626
-
Mm9::chr2:103103766..103103770,-p@chr2:103103766..103103770
-
Mm9::chr2:117952400..117952414,+p@chr2:117952400..117952414
+
Mm9::chr2:117952457..117952476,+p@chr2:117952457..117952476
+
Mm9::chr2:130523198..130523217,-p1@Slc4a11
Mm9::chr2:132771413..132771424,-p6@Fermt1
Mm9::chr2:132771496..132771508,-p7@Fermt1
Mm9::chr2:132771611..132771620,-p12@Fermt1
Mm9::chr2:144564146..144564166,+p3@Dtd1
Mm9::chr2:164388207..164388221,+p1@Wfdc2
Mm9::chr2:164389604..164389615,+p@chr2:164389604..164389615
+
Mm9::chr2:164393992..164394012,-p@chr2:164393992..164394012
-
Mm9::chr2:60538178..60538182,-p@chr2:60538178..60538182
-
Mm9::chr2:73160809..73160811,+p@chr2:73160809..73160811
+
Mm9::chr2:83646739..83646758,+p@chr2:83646739..83646758
+
Mm9::chr3:121426433..121426452,+p2@F3
Mm9::chr3:121426498..121426503,+p4@F3
Mm9::chr3:121426519..121426536,+p1@F3
Mm9::chr3:121437538..121437546,+p@chr3:121437538..121437546
+
Mm9::chr3:121437587..121437593,+p@chr3:121437587..121437593
+
Mm9::chr3:122094760..122094780,-p@chr3:122094760..122094780
-
Mm9::chr3:131670443..131670456,+p@chr3:131670443..131670456
+
Mm9::chr3:89487103..89487111,-p@chr3:89487103..89487111
-
Mm9::chr3:90330696..90330701,+p4@S100a14
Mm9::chr3:90341213..90341226,+p8@S100a16
Mm9::chr3:90392458..90392472,+p@chr3:90392458..90392472
+
Mm9::chr3:90417441..90417458,+p@chr3:90417441..90417458
+
Mm9::chr3:90418268..90418279,+p@chr3:90418268..90418279
+
Mm9::chr3:90418333..90418337,-p@chr3:90418333..90418337
-
Mm9::chr3:95539830..95539861,+p@chr3:95539830..95539861
+
Mm9::chr3:95540003..95540044,-p@chr3:95540003..95540044
-
Mm9::chr3:95540043..95540066,+p@chr3:95540043..95540066
+
Mm9::chr3:95540093..95540105,+p@chr3:95540093..95540105
+
Mm9::chr3:95540608..95540642,-p@chr3:95540608..95540642
-
Mm9::chr4:117602071..117602080,-p2@Artn
Mm9::chr4:154956870..154956881,+p4@Nadk
Mm9::chr4:88563148..88563158,-p@chr4:88563148..88563158
-
Mm9::chr4:88563185..88563192,-p@chr4:88563185..88563192
-
Mm9::chr4:88696144..88696152,+p3@Gm12603
Mm9::chr4:88696177..88696184,+p2@Gm12603
Mm9::chr4:88696200..88696228,+p1@Gm12603
Mm9::chr5:103804464..103804467,+p@chr5:103804464..103804467
+
Mm9::chr5:125866346..125866349,+p@chr5:125866346..125866349
+
Mm9::chr5:135420996..135421000,+p@chr5:135420996..135421000
+
Mm9::chr5:135421121..135421128,-p@chr5:135421121..135421128
-
Mm9::chr5:135421686..135421706,-p@chr5:135421686..135421706
-
Mm9::chr5:135421891..135421901,-p@chr5:135421891..135421901
-
Mm9::chr5:135422125..135422141,-p@chr5:135422125..135422141
-
Mm9::chr5:135422309..135422313,-p@chr5:135422309..135422313
-
Mm9::chr5:35341760..35341766,+p12@Rgs12
Mm9::chr5:58617856..58617867,+p@chr5:58617856..58617867
+
Mm9::chr5:73797457..73797507,+p1@Cwh43
Mm9::chr5:91188375..91188393,+p1@Cxcl5
Mm9::chr5:91197537..91197552,+p1@Ppbp
Mm9::chr5:91198477..91198490,+p@chr5:91198477..91198490
+
Mm9::chr5:91198620..91198632,+p@chr5:91198620..91198632
+
Mm9::chr5:91198876..91198885,+p@chr5:91198876..91198885
+
Mm9::chr5:91199084..91199088,-p@chr5:91199084..91199088
-
Mm9::chr5:91568617..91568633,+p1@Areg
Mm9::chr5:91570078..91570084,+p@chr5:91570078..91570084
+
Mm9::chr5:92644371..92644380,-p1@U90926
Mm9::chr5:97225101..97225112,+p@chr5:97225101..97225112
+
Mm9::chr6:122550396..122550400,-p5@Apobec1
Mm9::chr6:125410606..125410617,-p@chr6:125410606..125410617
-
Mm9::chr6:125410674..125410686,-p@chr6:125410674..125410686
-
Mm9::chr6:135034088..135034101,+p@chr6:135034088..135034101
+
Mm9::chr6:142287510..142287516,-p@chr6:142287510..142287516
-
Mm9::chr6:147205603..147205610,+p@chr6:147205603..147205610
+
Mm9::chr6:147205677..147205683,+p@chr6:147205677..147205683
+
Mm9::chr6:147212380..147212396,-p1@Pthlh
Mm9::chr6:147212455..147212462,-p6@Pthlh
Mm9::chr6:147212485..147212499,-p4@Pthlh
Mm9::chr6:147212504..147212550,-p2@Pthlh
Mm9::chr6:147212620..147212625,+p@chr6:147212620..147212625
+
Mm9::chr6:147212646..147212674,-p3@Pthlh
Mm9::chr6:147338308..147338339,-p@chr6:147338308..147338339
-
Mm9::chr6:29490887..29490891,+p5@Irf5
Mm9::chr6:50331651..50331654,-p@chr6:50331651..50331654
-
Mm9::chr6:50332830..50332846,-p2@Osbpl3
Mm9::chr7:116780936..116780950,-p@chr7:116780936..116780950
-
Mm9::chr7:119570539..119570552,+p7@Parva
Mm9::chr7:121862157..121862175,+p1@Calcb
Mm9::chr7:121866295..121866309,+p@chr7:121866295..121866309
+
Mm9::chr7:133766759..133766769,+p@chr7:133766759..133766769
+
Mm9::chr7:19929891..19929904,+p6@Ercc1
Mm9::chr7:77505410..77505426,+p@chr7:77505410..77505426
+
Mm9::chr8:109079897..109079901,+p@chr8:109079897..109079901
+
Mm9::chr8:32217083..32217090,+p@chr8:32217083..32217090
+
Mm9::chr8:74047419..74047426,+p1@ENSMUST00000166830
Mm9::chr8:74226505..74226533,-p@chr8:74226505..74226533
-
Mm9::chr9:108239609..108239630,+p@chr9:108239609..108239630
+
Mm9::chr9:110941233..110941240,+p@chr9:110941233..110941240
+
Mm9::chr9:110941246..110941254,+p@chr9:110941246..110941254
+
Mm9::chrX:153315992..153315996,+p@chrX:153315992..153315996
+
Mm9::chrX:163645025..163645028,+p@chrX:163645025..163645028
+
Mm9::chrX:163647400..163647406,-p5@Tmsb4x
Mm9::chrX:20383628..20383635,+p@chrX:20383628..20383635
+
Mm9::chrX:73088313..73088332,-p4@Pls3


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:0005102receptor binding0.0078642851207815
GO:0005615extracellular space0.0078642851207815
GO:0044421extracellular region part0.0100560245154138
GO:0005125cytokine activity0.0112832883092901



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><br>

Uber Anatomy
Ontology termp-valuen
trachea3.67e-343
respiratory airway3.67e-343
tracheobronchial tree3.67e-343
lower respiratory tract3.67e-343
cloaca2.41e-153
anal region2.41e-153
embryonic cloaca2.41e-153
terminal part of digestive tract2.41e-153
hindgut2.41e-153
primitive urogenital sinus2.41e-153
proctodeum2.41e-153
vagina2.59e-121
urinary bladder7.11e-121
lower urinary tract7.11e-121
internal female genitalia1.20e-095
orifice1.33e-095
genitourinary system1.33e-095


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)
MA0003.10.0329801
MA0004.10.0794009
MA0006.10.0721864
MA0007.11.00332
MA0009.10.602182
MA0014.10.0522206
MA0017.10.029846
MA0019.11.03485
MA0024.10.14034
MA0025.10.245125
MA0027.11.16572
MA0028.10.00207692
MA0029.10.121007
MA0030.10.262065
MA0031.10.853257
MA0038.10.374026
MA0040.10.198188
MA0041.11.08379
MA0042.10.791735
MA0043.10.305021
MA0046.10.225502
MA0048.10.38901
MA0050.10.443597
MA0051.10.262406
MA0052.10.0814748
MA0055.10.00318612
MA0056.10
MA0057.10.0342894
MA0058.10.0795319
MA0059.10.533563
MA0060.10.000273249
MA0061.10.438237
MA0063.10
MA0066.10.900339
MA0067.10.366475
MA0068.10.0778037
MA0069.10.20777
MA0070.10.0765205
MA0071.10.593276
MA0072.11.67304
MA0073.10.00484476
MA0074.10.250277
MA0076.10.0260183
MA0077.10.0618449
MA0078.10.211331
MA0081.10.0896767
MA0083.10.128357
MA0084.10.308232
MA0087.10.246376
MA0088.10.0117936
MA0089.10
MA0090.11.75235
MA0091.11.00992
MA0092.10.686402
MA0093.10.0693921
MA0095.10
MA0098.10
MA0100.10.481481
MA0101.10.455316
MA0103.10.492455
MA0105.10.0020176
MA0106.10.125952
MA0107.10.574373
MA0108.21.84523
MA0109.10
MA0111.10.342059
MA0113.10.439732
MA0114.10.00239271
MA0115.10.30897
MA0116.10.28942
MA0117.10.109051
MA0119.10.25068
MA0122.10.537563
MA0124.10.633149
MA0125.10.229336
MA0130.10
MA0131.10.104217
MA0132.10
MA0133.10
MA0135.10.0400072
MA0136.10.61136
MA0139.10.0408486
MA0140.10.0363401
MA0141.10.621404
MA0142.10.546067
MA0143.10.493203
MA0144.10.929094
MA0145.11.57095
MA0146.10.000106724
MA0147.10.0279219
MA0148.10.0997441
MA0149.11.33418e-05
MA0062.20.0138735
MA0035.20.0800021
MA0039.20.219209
MA0138.20.011576
MA0002.20.736389
MA0137.20.601503
MA0104.20.0314363
MA0047.20.241415
MA0112.20.445364
MA0065.20.153149
MA0150.10.360829
MA0151.10
MA0152.10.241641
MA0153.10.169422
MA0154.10.509606
MA0155.10.220001
MA0156.10.23815
MA0157.10.280652
MA0158.10
MA0159.11.58964
MA0160.10.103849
MA0161.10
MA0162.10.030261
MA0163.10.140703
MA0164.10.300461
MA0080.21.03703
MA0018.20.208666
MA0099.20.941001
MA0079.25.88968e-06
MA0102.20.915298
MA0258.11.91279
MA0259.10.0028903
MA0442.10
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