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MCL coexpression mm9:98: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000474!9.78e-08!9;UBERON:0000947!1.89e-07!4;UBERON:0001637!1.89e-07!4;UBERON:0004573!1.89e-07!4;UBERON:0003509!1.89e-07!4;UBERON:0004571!1.89e-07!4;UBERON:0010191!1.89e-07!4;UBERON:0004572!1.89e-07!4;UBERON:0000014!3.22e-07!5;UBERON:0001003!3.22e-07!5;UBERON:0002097!3.22e-07!5;UBERON:0002199!3.22e-07!5;UBERON:0007029!3.22e-07!5;UBERON:0007376!3.22e-07!5;UBERON:0002416!3.22e-07!5;UBERON:0007383!3.22e-07!5;UBERON:0000383!3.81e-07!10
|ontology_enrichment_uberon=UBERON:0000474!9.78e-08!9;UBERON:0000947!1.89e-07!4;UBERON:0001637!1.89e-07!4;UBERON:0004573!1.89e-07!4;UBERON:0003509!1.89e-07!4;UBERON:0004571!1.89e-07!4;UBERON:0010191!1.89e-07!4;UBERON:0004572!1.89e-07!4;UBERON:0000014!3.22e-07!5;UBERON:0001003!3.22e-07!5;UBERON:0002097!3.22e-07!5;UBERON:0002199!3.22e-07!5;UBERON:0007029!3.22e-07!5;UBERON:0007376!3.22e-07!5;UBERON:0002416!3.22e-07!5;UBERON:0007383!3.22e-07!5;UBERON:0000383!3.81e-07!10
|tfbs_overrepresentation_for_novel_motifs=0.0324412,0.00316719,0.089072,2.29932,0.257062,1.17921,0.177565,0.0112494,0.0154056,0.000185489,0.118516,0.632207,0.528683,0.00185366,0.893948,0,0.0754702,1.9409,0.323446,0.0224263,0.617589,0.0114013,0.041015,0.591938,0.260145,0.128164,0.803308,0.0147001,0.23486,0.00549889,0.145819,0.140669,0.00794122,0.179445,0.03257,0.104096,3.97097e-05,0.424764,0.724187,0.296692,2.00095,0.0815331,0.669124,5.636,1.66204e-05,0.282985,0.240562,0.106886,1.13476,0.163363,0.578816,0.159201,0.255494,0.0783105,0.288098,0.53579,0.8479,0.251258,0.0123892,0.20476,0.125923,0.17101,0.464672,0.162991,0.118389,0.660387,0.147697,0.376656,0.0297518,0.270063,0.0676768,1.00454,6.37199e-07,1.10922,2.66107e-06,0.000219651,0.0629898,0.00680648,1.18564,0.821878,2.78843,0.412948,1.69865,2.72714,0.452535,2.52662e-11,0.299554,0.179558,0.432535,0.506671,0.186269,0.0577589,1.39561,1.18171,0.00269908,0.125368,0.174612,0.152779,0.655514,0.0676781,0.364008,0.594993,0.914015,0.58043,0.174474,0.0031003,0.0230708,0.102461,0.00434519,0.0107308,0.0112534,0.539585,0.0555053,0.00597844,0.556862,0.236066,7.50321e-07,0.652977,0.0761622,0.0769115,0.679108,0.288983,0.246301,1.2066,0.22338,1.20078,0.0966174,0.337317,0.146904,0.205353,0.234376,0.0226302,0.412007,1.77331,0.203285,2.34349,1.3412,1.00892,0.518294,0.833302,0.480276,6.14441,0.0197782,0.344054,0.333229,0.0367737,0.664878,0.79667,0.0153909,0.0109022,0.00619441,1.89854e-08,0.0789022,0.366162,0.229564,0.113074,0.295548,0.0206206,0.0660125,0.0762312,0.179903,3.45245,1.63265,1.45415,0.327267,0.216925,0.080998,0.858884,6.70544e-08
}}
}}

Revision as of 17:47, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:111434260..111434335,-p2@Glipr1
Mm9::chr10:33816181..33816195,-p@chr10:33816181..33816195
-
Mm9::chr10:58275085..58275100,+p@chr10:58275085..58275100
+
Mm9::chr10:67560323..67560365,-p@chr10:67560323..67560365
-
Mm9::chr10:67598037..67598049,-p@chr10:67598037..67598049
-
Mm9::chr10:67821185..67821217,-p@chr10:67821185..67821217
-
Mm9::chr10:85808596..85808612,+p@chr10:85808596..85808612
+
Mm9::chr10:85808640..85808692,+p@chr10:85808640..85808692
+
Mm9::chr10:85808761..85808769,+p@chr10:85808761..85808769
+
Mm9::chr10:85808787..85808829,+p@chr10:85808787..85808829
+
Mm9::chr10:85810413..85810432,+p@chr10:85810413..85810432
+
Mm9::chr10:96942237..96942251,+p1@Dcn
Mm9::chr10:96942259..96942284,+p2@Dcn
Mm9::chr10:96942356..96942384,+p3@Dcn
Mm9::chr10:96942848..96942861,+p@chr10:96942848..96942861
+
Mm9::chr10:96945971..96945981,+p@chr10:96945971..96945981
+
Mm9::chr10:96945998..96946011,+p@chr10:96945998..96946011
+
Mm9::chr10:96946041..96946050,+p@chr10:96946041..96946050
+
Mm9::chr10:96946058..96946077,+p@chr10:96946058..96946077
+
Mm9::chr10:96946087..96946109,+p@chr10:96946087..96946109
+
Mm9::chr10:96946110..96946113,+p@chr10:96946110..96946113
+
Mm9::chr10:96946115..96946149,+p@chr10:96946115..96946149
+
Mm9::chr10:96957645..96957675,+p@chr10:96957645..96957675
+
Mm9::chr10:96966441..96966444,+p@chr10:96966441..96966444
+
Mm9::chr10:96969115..96969146,+p@chr10:96969115..96969146
+
Mm9::chr10:96969168..96969181,+p@chr10:96969168..96969181
+
Mm9::chr10:96969187..96969218,+p@chr10:96969187..96969218
+
Mm9::chr10:96969294..96969304,+p@chr10:96969294..96969304
+
Mm9::chr10:96970339..96970351,+p@chr10:96970339..96970351
+
Mm9::chr10:96970387..96970403,+p@chr10:96970387..96970403
+
Mm9::chr10:96976227..96976253,+p@chr10:96976227..96976253
+
Mm9::chr10:96980085..96980103,+p@chr10:96980085..96980103
+
Mm9::chr10:96980128..96980140,+p@chr10:96980128..96980140
+
Mm9::chr10:96980150..96980162,+p@chr10:96980150..96980162
+
Mm9::chr10:96980181..96980204,+p@chr10:96980181..96980204
+
Mm9::chr10:96980215..96980228,+p@chr10:96980215..96980228
+
Mm9::chr10:96980243..96980263,+p@chr10:96980243..96980263
+
Mm9::chr10:96980274..96980285,+p@chr10:96980274..96980285
+
Mm9::chr10:96980294..96980307,+p@chr10:96980294..96980307
+
Mm9::chr10:96980314..96980325,+p@chr10:96980314..96980325
+
Mm9::chr10:96980641..96980675,+p@chr10:96980641..96980675
+
Mm9::chr11:118162723..118162743,-p@chr11:118162723..118162743
-
Mm9::chr11:118163462..118163473,-p@chr11:118163462..118163473
-
Mm9::chr11:118164365..118164387,-p@chr11:118164365..118164387
-
Mm9::chr11:118164399..118164407,-p@chr11:118164399..118164407
-
Mm9::chr11:118164535..118164544,-p@chr11:118164535..118164544
-
Mm9::chr11:118164866..118164900,-p@chr11:118164866..118164900
-
Mm9::chr11:81849982..81850000,+p@chr11:81849982..81850000
+
Mm9::chr11:81859207..81859223,+p1@Ccl7
Mm9::chr11:96160521..96160536,+p@chr11:96160521..96160536
+
Mm9::chr11:96160537..96160566,+p@chr11:96160537..96160566
+
Mm9::chr14:24251697..24251707,+p@chr14:24251697..24251707
+
Mm9::chr14:24251717..24251731,+p@chr14:24251717..24251731
+
Mm9::chr15:6824260..6824285,-p1@Osmr
Mm9::chr15:6824301..6824306,-p5@Osmr
Mm9::chr15:75145675..75145702,-p@chr15:75145675..75145702
-
Mm9::chr15:77666671..77666698,-p@chr15:77666671..77666698
-
Mm9::chr15:77666718..77666746,-p@chr15:77666718..77666746
-
Mm9::chr15:97612618..97612625,+p@chr15:97612618..97612625
+
Mm9::chr15:97612626..97612637,+p@chr15:97612626..97612637
+
Mm9::chr16:3959456..3959472,-p@chr16:3959456..3959472
-
Mm9::chr17:14802633..14802637,-p@chr17:14802633..14802637
-
Mm9::chr17:14817013..14817022,-p@chr17:14817013..14817022
-
Mm9::chr17:14827154..14827169,-p@chr17:14827154..14827169
-
Mm9::chr17:25590664..25590687,+p@chr17:25590664..25590687
+
Mm9::chr17:71340031..71340044,-p5@Myl12b
Mm9::chr17:78817388..78817406,-p@chr17:78817388..78817406
-
Mm9::chr17:78907550..78907557,+p8@Vit
Mm9::chr17:87574327..87574332,+p@chr17:87574327..87574332
+
Mm9::chr18:37967699..37967773,+p@chr18:37967699..37967773
+
Mm9::chr19:34657626..34657630,+p2@Ifit3
Mm9::chr19:47394869..47394930,-p@chr19:47394869..47394930
-
Mm9::chr19:9072375..9072395,+p@chr19:9072375..9072395
+
Mm9::chr1:127573425..127573432,+p12@Gpr39
Mm9::chr1:127573597..127573652,+p1@Gpr39
Mm9::chr1:127573690..127573699,+p11@Gpr39
Mm9::chr1:127573733..127573745,+p7@Gpr39
Mm9::chr1:127573795..127573810,+p4@Gpr39
Mm9::chr2:112043522..112043530,-p@chr2:112043522..112043530
-
Mm9::chr2:178190136..178190151,+p@chr2:178190136..178190151
+
Mm9::chr3:79689074..79689090,+p11@Fam198b
Mm9::chr4:58219471..58219488,-p2@Svep1
Mm9::chr4:58219511..58219520,-p8@Svep1
Mm9::chr4:58219542..58219545,-p11@Svep1
Mm9::chr4:58219558..58219569,-p6@Svep1
Mm9::chr5:110565033..110565038,+p@chr5:110565033..110565038
+
Mm9::chr5:35868340..35868354,-p3@Cpz
Mm9::chr6:128607994..128608007,+p@chr6:128607994..128608007
+
Mm9::chr6:128920492..128920498,-p@chr6:128920492..128920498
-
Mm9::chr6:17257772..17257778,+p13@Cav1
Mm9::chr7:90894571..90894616,-p5@Il16
Mm9::chr8:33119960..33119991,-p1@Nrg1
Mm9::chr8:69221061..69221108,+p4@Npy1r
Mm9::chr8:69221150..69221161,+p5@Npy1r
Mm9::chr8:69221163..69221172,+p6@Npy1r
Mm9::chr8:69221303..69221327,+p2@Npy1r
Mm9::chr8:69221343..69221360,+p1@Npy1r
Mm9::chr8:69221365..69221382,+p3@Npy1r
Mm9::chr8:69228447..69228492,+p@chr8:69228447..69228492
+
Mm9::chr8:69857155..69857159,+p@chr8:69857155..69857159
+
Mm9::chr9:50559444..50559472,+p10@Cryab
Mm9::chr9:56265830..56265859,-p1@C230081A13Rik
Mm9::chr9:7445837..7445855,+p1@Mmp3
Mm9::chrX:160811295..160811307,+p8@Figf
Mm9::chrX:160811318..160811344,+p1@Figf
Mm9::chrX:160811352..160811356,-p@chrX:160811352..160811356
-
Mm9::chrX:160811359..160811365,+p9@Figf
Mm9::chrX:160811403..160811416,+p10@Figf
Mm9::chrX:160811420..160811437,+p7@Figf
Mm9::chrX:160811447..160811481,+p3@Figf
Mm9::chrX:160811531..160811557,+p6@Figf
Mm9::chrX:160811662..160811712,+p2@Figf
Mm9::chrX:160823617..160823622,+p@chrX:160823617..160823622
+
Mm9::chrX:160823859..160823870,+p@chrX:160823859..160823870
+
Mm9::chrX:160829602..160829624,+p13@Figf
Mm9::chrX:160829660..160829667,+p14@Figf
Mm9::chrX:160832435..160832462,+p@chrX:160832435..160832462
+
Mm9::chrX:160838683..160838694,+p@chrX:160838683..160838694
+
Mm9::chrX:160838787..160838800,+p@chrX:160838787..160838800
+
Mm9::chrX:160838859..160838880,+p@chrX:160838859..160838880
+
Mm9::chrX:160839012..160839023,+p@chrX:160839012..160839023
+
Mm9::chrX:160839069..160839076,+p@chrX:160839069..160839076
+
Mm9::chrX:160839194..160839217,+p@chrX:160839194..160839217
+
Mm9::chrX:160839338..160839364,+p@chrX:160839338..160839364
+
Mm9::chrX:160839663..160839673,+p@chrX:160839663..160839673
+
Mm9::chrX:160839744..160839754,+p@chrX:160839744..160839754
+
Mm9::chrX:160839768..160839780,+p@chrX:160839768..160839780
+
Mm9::chrX:160840025..160840037,+p@chrX:160840025..160840037
+
Mm9::chrX:160840048..160840057,+p@chrX:160840048..160840057
+
Mm9::chrX:160840154..160840181,+p@chrX:160840154..160840181
+
Mm9::chrX:65748571..65748595,+p@chrX:65748571..65748595
+
Mm9::chrX:65748600..65748616,+p@chrX:65748600..65748616
+


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:0044421extracellular region part0.0203021860065777
GO:0007626locomotory behavior0.0203021860065777
GO:0005125cytokine activity0.0203021860065777
GO:0043408regulation of MAPKKK cascade0.0255942277618279
GO:0005578proteinaceous extracellular matrix0.0277167938224125
GO:0005615extracellular space0.0277167938224125
GO:0000165MAPKKK cascade0.0277167938224125
GO:0007610behavior0.0295784110470665
GO:0005102receptor binding0.0295784110470665
GO:0045595regulation of cell differentiation0.0295784110470665
GO:0007517muscle development0.0295784110470665
GO:0033483gas homeostasis0.0295784110470665
GO:0052547regulation of peptidase activity0.0295784110470665
GO:0030857negative regulation of epithelial cell differentiation0.0295784110470665
GO:0045908negative regulation of vasodilation0.0295784110470665
GO:0033484nitric oxide homeostasis0.0295784110470665
GO:0004248stromelysin 1 activity0.0295784110470665
GO:0042312regulation of vasodilation0.0295784110470665
GO:0004924oncostatin-M receptor activity0.0295784110470665
GO:0007165signal transduction0.0402524877967486
GO:0008201heparin binding0.0402524877967486
GO:0005176ErbB-2 class receptor binding0.0402524877967486
GO:0045019negative regulation of nitric oxide biosynthetic process0.0402524877967486
GO:0043185vascular endothelial growth factor receptor 3 binding0.0402524877967486
GO:0045907positive regulation of vasoconstriction0.0402524877967486
GO:0048552regulation of metalloenzyme activity0.0402524877967486
GO:0048554positive regulation of metalloenzyme activity0.0402524877967486
GO:0007243protein kinase cascade0.0402524877967486
GO:0007154cell communication0.0465489471785
GO:0001937negative regulation of endothelial cell proliferation0.0499993359408931
GO:0060056mammary gland involution0.0499993359408931
GO:0001602pancreatic polypeptide receptor activity0.0499993359408931
GO:0046426negative regulation of JAK-STAT cascade0.0499993359408931
GO:0005539glycosaminoglycan binding0.0499993359408931
GO:0050793regulation of developmental process0.0499993359408931



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>

Cell Type
Ontology termp-valuen
muscle precursor cell2.28e-106
contractile cell2.28e-106
muscle cell2.28e-106
myoblast2.28e-106
mesodermal cell1.07e-087

Uber Anatomy
Ontology termp-valuen
female reproductive system9.78e-089
aorta1.89e-074
artery1.89e-074
systemic artery1.89e-074
arterial blood vessel1.89e-074
systemic arterial system1.89e-074
aortic system1.89e-074
arterial system1.89e-074
zone of skin3.22e-075
skin epidermis3.22e-075
skin of body3.22e-075
integument3.22e-075
surface3.22e-075
outer epithelium3.22e-075
integumental system3.22e-075
enveloping layer of ectoderm3.22e-075
musculature of body3.81e-0710


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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