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MCL coexpression mm9:98: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0682179984609265,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.950924379829339,0.908291161538664,0.514433842423199,0,0,0,0,0,0,0,0,0,0.180274689346406,0.269419612201536,0.307783515127471,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0108471729966364,0,0,0,0,0,0,0,0,0,0,0.0162577312456948,0,0.0601091194109999,0,0,0,0.0064992961057409,0.0917293418104957,0.0302367483543231,0,0.14053823468489,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0805105854221362,0.0509235292940968,0,0,0,0,0,0,0.0285860945550467,0.0304485801143916,0,0,0,0,0,0,0.00059307183245967,0,0.0812688455295622,0,0,0,0,0,0,0,0,0,0.00921360242764754,0,0,0.00332687416732115,0,0.0439478645737611,0.0338533374824575,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0294389011296462,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0.0635717028550276,0.0862490530712648,0.0407753757518504,0.0659019793256198,0.0691813633419548,0.0611423887556865,0,0,0,0,0,0,0.065928707415698,0.0101811243294539,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0.0711694759496908,0.0655375003561515,0.123832128606708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0662835200988411,0.0933607927204926,0.0576297592653282,0.0489745727197172,0.0660055475634404,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.030801238290838,0,0,0.054943952156948,0.034489466458534,0,0,0,0,0,0,0,0.0527554171614426,0.0316811700249064,0.0481920468563092,0.0253351549374928,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0835009837834512,0,0,0,0.0767094571656325,0.208590273943841,0.135547100918658,0.0843504501108034,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0388749848471105,0.0405173193169751,0.0242538736058389,0,0.0156258844325847,0,0,0,0,0.0621869172751065,0,0.0353824716925255,0.0322653150389299,0.0352754493378881,0,0,0.0553034373508932,0,0,0.0398547133465806,0,0,0.0290694127952578,0,0.026992222072688,0.0845301845292944,0.0409639079369627,0.0790419268890558,0
|gostat_on_MCL_coexpression=GO:0044421;extracellular region part;0.0203021860065777;13179,14205,18414,242939,21826,74199,20306,16170,21858,17392!GO:0007626;locomotory behavior;0.0203021860065777;20306,16170,18166,211323!GO:0005125;cytokine activity;0.0203021860065777;20306,16170,14205,211323!GO:0043408;regulation of MAPKKK cascade;0.0255942277618279;12389,21858!GO:0005578;proteinaceous extracellular matrix;0.0277167938224125;242939,13179,21858,17392!GO:0005615;extracellular space;0.0277167938224125;13179,14205,18414,21826,74199,20306,16170,21858,17392!GO:0000165;MAPKKK cascade;0.0277167938224125;12389,21858,211323!GO:0007610;behavior;0.0295784110470665;20306,16170,18166,211323!GO:0005102;receptor binding;0.0295784110470665;20306,16170,21858,14205,211323!GO:0045595;regulation of cell differentiation;0.0295784110470665;12389,21858,211323!GO:0007517;muscle development;0.0295784110470665;12389,12955,211323!GO:0033483;gas homeostasis;0.0295784110470665;12389!GO:0052547;regulation of peptidase activity;0.0295784110470665;12389!GO:0030857;negative regulation of epithelial cell differentiation;0.0295784110470665;12389!GO:0045908;negative regulation of vasodilation;0.0295784110470665;12389!GO:0033484;nitric oxide homeostasis;0.0295784110470665;12389!GO:0004248;stromelysin 1 activity;0.0295784110470665;17392!GO:0042312;regulation of vasodilation;0.0295784110470665;12389!GO:0004924;oncostatin-M receptor activity;0.0295784110470665;18414!GO:0007165;signal transduction;0.0402524877967486;14205,71111,18414,211323,12389,242939,12955,66395,20306,21858,18166!GO:0008201;heparin binding;0.0402524877967486;21826,20306!GO:0005176;ErbB-2 class receptor binding;0.0402524877967486;211323!GO:0045019;negative regulation of nitric oxide biosynthetic process;0.0402524877967486;12389!GO:0043185;vascular endothelial growth factor receptor 3 binding;0.0402524877967486;14205!GO:0045907;positive regulation of vasoconstriction;0.0402524877967486;12389!GO:0048552;regulation of metalloenzyme activity;0.0402524877967486;12389!GO:0048554;positive regulation of metalloenzyme activity;0.0402524877967486;12389!GO:0007243;protein kinase cascade;0.0402524877967486;12389,21858,211323!GO:0007154;cell communication;0.0465489471785;14205,71111,18414,211323,12389,242939,12955,66395,20306,21858,18166!GO:0001937;negative regulation of endothelial cell proliferation;0.0499993359408931;12389!GO:0060056;mammary gland involution;0.0499993359408931;12389!GO:0001602;pancreatic polypeptide receptor activity;0.0499993359408931;18166!GO:0046426;negative regulation of JAK-STAT cascade;0.0499993359408931;12389!GO:0005539;glycosaminoglycan binding;0.0499993359408931;21826,20306!GO:0050793;regulation of developmental process;0.0499993359408931;12389,21858,211323!
|gostat_on_MCL_coexpression=GO:0044421;extracellular region part;0.0203021860065777;13179,14205,18414,242939,21826,74199,20306,16170,21858,17392!GO:0007626;locomotory behavior;0.0203021860065777;20306,16170,18166,211323!GO:0005125;cytokine activity;0.0203021860065777;20306,16170,14205,211323!GO:0043408;regulation of MAPKKK cascade;0.0255942277618279;12389,21858!GO:0005578;proteinaceous extracellular matrix;0.0277167938224125;242939,13179,21858,17392!GO:0005615;extracellular space;0.0277167938224125;13179,14205,18414,21826,74199,20306,16170,21858,17392!GO:0000165;MAPKKK cascade;0.0277167938224125;12389,21858,211323!GO:0007610;behavior;0.0295784110470665;20306,16170,18166,211323!GO:0005102;receptor binding;0.0295784110470665;20306,16170,21858,14205,211323!GO:0045595;regulation of cell differentiation;0.0295784110470665;12389,21858,211323!GO:0007517;muscle development;0.0295784110470665;12389,12955,211323!GO:0033483;gas homeostasis;0.0295784110470665;12389!GO:0052547;regulation of peptidase activity;0.0295784110470665;12389!GO:0030857;negative regulation of epithelial cell differentiation;0.0295784110470665;12389!GO:0045908;negative regulation of vasodilation;0.0295784110470665;12389!GO:0033484;nitric oxide homeostasis;0.0295784110470665;12389!GO:0004248;stromelysin 1 activity;0.0295784110470665;17392!GO:0042312;regulation of vasodilation;0.0295784110470665;12389!GO:0004924;oncostatin-M receptor activity;0.0295784110470665;18414!GO:0007165;signal transduction;0.0402524877967486;14205,71111,18414,211323,12389,242939,12955,66395,20306,21858,18166!GO:0008201;heparin binding;0.0402524877967486;21826,20306!GO:0005176;ErbB-2 class receptor binding;0.0402524877967486;211323!GO:0045019;negative regulation of nitric oxide biosynthetic process;0.0402524877967486;12389!GO:0043185;vascular endothelial growth factor receptor 3 binding;0.0402524877967486;14205!GO:0045907;positive regulation of vasoconstriction;0.0402524877967486;12389!GO:0048552;regulation of metalloenzyme activity;0.0402524877967486;12389!GO:0048554;positive regulation of metalloenzyme activity;0.0402524877967486;12389!GO:0007243;protein kinase cascade;0.0402524877967486;12389,21858,211323!GO:0007154;cell communication;0.0465489471785;14205,71111,18414,211323,12389,242939,12955,66395,20306,21858,18166!GO:0001937;negative regulation of endothelial cell proliferation;0.0499993359408931;12389!GO:0060056;mammary gland involution;0.0499993359408931;12389!GO:0001602;pancreatic polypeptide receptor activity;0.0499993359408931;18166!GO:0046426;negative regulation of JAK-STAT cascade;0.0499993359408931;12389!GO:0005539;glycosaminoglycan binding;0.0499993359408931;21826,20306!GO:0050793;regulation of developmental process;0.0499993359408931;12389,21858,211323!
}}
}}

Revision as of 12:36, 11 October 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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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