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MCL coexpression mm9:182: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.153880826611225,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0617533076901792,0,0,0,0,0,0.117729217788871,0,0,0,0,0,0.0438795366937978,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0.0201240793641256,0.112901225419538,0.0207607123523015,0,0.0206030317439609,0.114425913041783,0.148506588447784,0.0514097768499148,0.174463933976285,0.110319863569628,0,0.0651189800845078,0.158869788505911,0,0,0.0385665907204561,0.0669668960965366,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0.0458432280665598,0.0819907263755358,0.0652962901395099,0.0805105854221362,0.0509235292940968,0.0926821660500116,0.00998563100978843,0,0,0,0.0609639314262262,0.055406237837571,0.0523528812100954,0.0215502939106758,0.128773541986592,0,0,0,0,0.0215640332643444,0.0209547445151271,0.0812688455295622,0,0,0,0,0,0.0915002620172692,0.0719048481885784,0.0453231997000282,0.0926606817691936,0.116785086449131,0.165857749845381,0.103212884397651,0.166448281439834,0.127300564333298,0.364239413353659,0.237950519184841,0.23829705210096,0.221413475632559,0.186624607472909,0,0.0425379529581421,0,0,0.011005690177518,0.0129920886107978,0,0,0.00535500813108725,0,0,0.0662136857075299,0.0834657004726295,0.00689854303922023,0.0558839010423019,0,0.0849828766602549,0.0788703512227347,0,0.0893741091821246,0,0.148387507215387,0.142359732304287,0.173463294671616,0.195658603019455,0.159215297421721,0.211653043078159,0.136781266430475,0.0597086398946045,0,0,0,0,0,0,0,0.172137356316638,0.10536076625968,0.725343592025448,0.137398724818722,0.210606173730573,0.17199550242317,0.0716601710131013,0.170978156452844,0.531707688093908,0,0.0495622797347119,0.0799826606478215,0.193034057987777,0.125485336951101,0.234043989592131,0.582161400428896,0.506084336604706,0.680201872303073,0.653984380441187,0.905586642068648,0.825075366789607,0.812690421248762,0,0,0,0.0535006778525544,0.0646640766951323,0.0481354699899057,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0.060487198139331,0.0663147875126409,0,0,0,0,0,0,0.0443776375478306,0,0.0236025764468866,0.119268019631849,0,0,0,0,0,0,0,0.0636690261430045,0.0385741412904134,0,0.167123311310189,0.153407546465022,0,0.0662835200988411,0.0650059127791652,0.0494606362651129,0,0,0.111087966368681,0.0738741926906438,0,0,0.136843881272943,0.0857271995061012,0.055643654597214,0.0894734883806707,0,0,0,0,0,0,0.0445418537893845,0.0824580172145032,0.0857765460992942,0.0805698793017906,0.0703440807961409,0.0618374048633924,0.100105043383282,0,0,0,0,0,0,0.0677982110636083,0.0915665403705771,0.0531569878936061,0.0433069931089932,0.03346092271514,0.0348767343276367,0,0,0.0424616899933645,0,0,0,0,0,0,0.00109315305376106,0,0,0,0,0.0887491219977394,0,0,0,0,0.138417952808354,0.1176914972494,0.0124455767696781,0,0,0,0,0.0688732037536692,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0455176435646802,0.0371532349352818,0.0145301236673661,0.0531827301773239,0.0293468760001098,0.0472245945615809,0,0.0476191773904887,0.0766073954291401,0,0.0596387295197733,0.128033729919821,0.0709519923534245,0.092873634605593,0,0.0225679379736398,0.0352754493378881,0.0729583017401753,0.09562083374215,0.0553034373508932,0,0.000195109906033109,0.0529124198937543,0,0,0,0,0.0142916639059838,0.0827874332789343,0.0760168881589905,0.00669008943816042,0.0300488889835442
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.153880826611225,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0617533076901792,0,0,0,0,0,0.117729217788871,0,0,0,0,0,0.0438795366937978,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0.0201240793641256,0.112901225419538,0.0207607123523015,0,0.0206030317439609,0.114425913041783,0.148506588447784,0.0514097768499148,0.174463933976285,0.110319863569628,0,0.0651189800845078,0.158869788505911,0,0,0.0385665907204561,0.0669668960965366,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0.0458432280665598,0.0819907263755358,0.0652962901395099,0.0805105854221362,0.0509235292940968,0.0926821660500116,0.00998563100978843,0,0,0,0.0609639314262262,0.055406237837571,0.0523528812100954,0.0215502939106758,0.128773541986592,0,0,0,0,0.0215640332643444,0.0209547445151271,0.0812688455295622,0,0,0,0,0,0.0915002620172692,0.0719048481885784,0.0453231997000282,0.0926606817691936,0.116785086449131,0.165857749845381,0.103212884397651,0.166448281439834,0.127300564333298,0.364239413353659,0.237950519184841,0.23829705210096,0.221413475632559,0.186624607472909,0,0.0425379529581421,0,0,0.011005690177518,0.0129920886107978,0,0,0.00535500813108725,0,0,0.0662136857075299,0.0834657004726295,0.00689854303922023,0.0558839010423019,0,0.0849828766602549,0.0788703512227347,0,0.0893741091821246,0,0.148387507215387,0.142359732304287,0.173463294671616,0.195658603019455,0.159215297421721,0.211653043078159,0.136781266430475,0.0597086398946045,0,0,0,0,0,0,0,0.172137356316638,0.10536076625968,0.725343592025448,0.137398724818722,0.210606173730573,0.17199550242317,0.0716601710131013,0.170978156452844,0.531707688093908,0,0.0495622797347119,0.0799826606478215,0.193034057987777,0.125485336951101,0.234043989592131,0.582161400428896,0.506084336604706,0.680201872303073,0.653984380441187,0.905586642068648,0.825075366789607,0.812690421248762,0,0,0,0.0535006778525544,0.0646640766951323,0.0481354699899057,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0.060487198139331,0.0663147875126409,0,0,0,0,0,0,0.0443776375478306,0,0.0236025764468866,0.119268019631849,0,0,0,0,0,0,0,0.0636690261430045,0.0385741412904134,0,0.167123311310189,0.153407546465022,0,0.0662835200988411,0.0650059127791652,0.0494606362651129,0,0,0.111087966368681,0.0738741926906438,0,0,0.136843881272943,0.0857271995061012,0.055643654597214,0.0894734883806707,0,0,0,0,0,0,0.0445418537893845,0.0824580172145032,0.0857765460992942,0.0805698793017906,0.0703440807961409,0.0618374048633924,0.100105043383282,0,0,0,0,0,0,0.0677982110636083,0.0915665403705771,0.0531569878936061,0.0433069931089932,0.03346092271514,0.0348767343276367,0,0,0.0424616899933645,0,0,0,0,0,0,0.00109315305376106,0,0,0,0,0.0887491219977394,0,0,0,0,0.138417952808354,0.1176914972494,0.0124455767696781,0,0,0,0,0.0688732037536692,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0455176435646802,0.0371532349352818,0.0145301236673661,0.0531827301773239,0.0293468760001098,0.0472245945615809,0,0.0476191773904887,0.0766073954291401,0,0.0596387295197733,0.128033729919821,0.0709519923534245,0.092873634605593,0,0.0225679379736398,0.0352754493378881,0.0729583017401753,0.09562083374215,0.0553034373508932,0,0.000195109906033109,0.0529124198937543,0,0,0,0,0.0142916639059838,0.0827874332789343,0.0760168881589905,0.00669008943816042,0.0300488889835442
|gostat_on_MCL_coexpression=GO:0005529;sugar binding;0.00599056731030821;21824,17064!GO:0030246;carbohydrate binding;0.00608980077054871;21824,17064!GO:0050819;negative regulation of coagulation;0.0127084984748003;21824!GO:0050818;regulation of coagulation;0.0142958856510686;21824!GO:0005509;calcium ion binding;0.0211565737232751;21824,17064!GO:0007565;female pregnancy;0.038075356412911;21824!GO:0007596;blood coagulation;0.038075356412911;21824!GO:0007599;hemostasis;0.038075356412911;21824!GO:0050817;coagulation;0.038075356412911;21824!GO:0050878;regulation of body fluid levels;0.0444017506439279;21824!GO:0042060;wound healing;0.0455437900789349;21824!
|gostat_on_MCL_coexpression=GO:0005529;sugar binding;0.00599056731030821;21824,17064!GO:0030246;carbohydrate binding;0.00608980077054871;21824,17064!GO:0050819;negative regulation of coagulation;0.0127084984748003;21824!GO:0050818;regulation of coagulation;0.0142958856510686;21824!GO:0005509;calcium ion binding;0.0211565737232751;21824,17064!GO:0007565;female pregnancy;0.038075356412911;21824!GO:0007596;blood coagulation;0.038075356412911;21824!GO:0007599;hemostasis;0.038075356412911;21824!GO:0050817;coagulation;0.038075356412911;21824!GO:0050878;regulation of body fluid levels;0.0444017506439279;21824!GO:0042060;wound healing;0.0455437900789349;21824!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009569!1.99e-11!66;UBERON:0002048!2.00e-09!14;UBERON:0000117!2.00e-09!14;UBERON:0000171!2.00e-09!14;UBERON:0000170!2.00e-09!14;UBERON:0005597!2.00e-09!14;UBERON:0000118!2.00e-09!14;UBERON:0005177!1.61e-08!79;UBERON:0005153!1.06e-07!17;UBERON:0004872!1.68e-07!33;UBERON:0005178!8.83e-07!17;UBERON:0005181!8.83e-07!17;UBERON:0002224!8.83e-07!17;UBERON:0000915!8.83e-07!17;UBERON:0008947!8.83e-07!17;UBERON:0003258!8.83e-07!17
}}
}}

Revision as of 17:29, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115747077..115747081,+p@chr10:115747077..115747081
+
Mm9::chr10:115762285..115762289,+p@chr10:115762285..115762289
+
Mm9::chr10:115784442..115784445,+p@chr10:115784442..115784445
+
Mm9::chr10:115802415..115802428,+p@chr10:115802415..115802428
+
Mm9::chr10:115814687..115814688,+p@chr10:115814687..115814688
+
Mm9::chr11:53496800..53496839,-p@chr11:53496800..53496839
-
Mm9::chr16:85494593..85494595,-p@chr16:85494593..85494595
-
Mm9::chr17:87177841..87177845,+p@chr17:87177841..87177845
+
Mm9::chr17:87178069..87178097,+p@chr17:87178069..87178097
+
Mm9::chr17:87178100..87178121,+p@chr17:87178100..87178121
+
Mm9::chr17:87220495..87220499,+p@chr17:87220495..87220499
+
Mm9::chr17:87223030..87223045,+p@chr17:87223030..87223045
+
Mm9::chr17:87223095..87223117,+p@chr17:87223095..87223117
+
Mm9::chr17:87224988..87225003,+p@chr17:87224988..87225003
+
Mm9::chr17:87228733..87228774,+p@chr17:87228733..87228774
+
Mm9::chr17:87230312..87230317,+p@chr17:87230312..87230317
+
Mm9::chr17:87230399..87230413,+p@chr17:87230399..87230413
+
Mm9::chr17:87230456..87230468,+p@chr17:87230456..87230468
+
Mm9::chr17:87230588..87230610,+p@chr17:87230588..87230610
+
Mm9::chr17:87230632..87230639,+p@chr17:87230632..87230639
+
Mm9::chr17:87230653..87230664,+p@chr17:87230653..87230664
+
Mm9::chr17:87230684..87230691,+p@chr17:87230684..87230691
+
Mm9::chr17:87230685..87230709,-p@chr17:87230685..87230709
-
Mm9::chr17:87230694..87230713,+p@chr17:87230694..87230713
+
Mm9::chr17:87230755..87230766,+p@chr17:87230755..87230766
+
Mm9::chr17:87230788..87230808,+p@chr17:87230788..87230808
+
Mm9::chr17:87230813..87230832,+p@chr17:87230813..87230832
+
Mm9::chr17:87230860..87230907,+p@chr17:87230860..87230907
+
Mm9::chr17:87230958..87230961,+p@chr17:87230958..87230961
+
Mm9::chr18:61914577..61914583,-p@chr18:61914577..61914583
-
Mm9::chr1:10988780..10988788,+p@chr1:10988780..10988788
+
Mm9::chr1:10994604..10994606,+p@chr1:10994604..10994606
+
Mm9::chr1:11289533..11289563,+p@chr1:11289533..11289563
+
Mm9::chr1:59872821..59872825,+p@chr1:59872821..59872825
+
Mm9::chr2:148231240..148231243,-p@chr2:148231240..148231243
-
Mm9::chr2:148264176..148264189,-p@chr2:148264176..148264189
-
Mm9::chr2:152894949..152894961,+p@chr2:152894949..152894961
+
Mm9::chr2:84173701..84173715,-p@chr2:84173701..84173715
-
Mm9::chr2:84182702..84182714,-p@chr2:84182702..84182714
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Mm9::chr2:84182758..84182771,-p@chr2:84182758..84182771
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Mm9::chr2:84182950..84182961,-p@chr2:84182950..84182961
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Mm9::chr2:84184050..84184063,-p@chr2:84184050..84184063
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Mm9::chr2:84196553..84196569,-p@chr2:84196553..84196569
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Mm9::chr2:84202149..84202153,-p@chr2:84202149..84202153
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Mm9::chr2:84229855..84229864,-p@chr2:84229855..84229864
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Mm9::chr2:84252797..84252844,-p@chr2:84252797..84252844
-
Mm9::chr2:84256779..84256790,-p@chr2:84256779..84256790
-
Mm9::chr2:84261546..84261559,-p@chr2:84261546..84261559
-
Mm9::chr2:84264580..84264589,-p@chr2:84264580..84264589
-
Mm9::chr4:123284381..123284386,-p@chr4:123284381..123284386
-
Mm9::chr5:17083638..17083649,+p@chr5:17083638..17083649
+
Mm9::chr6:128088031..128088043,-p@chr6:128088031..128088043
-
Mm9::chr6:128183862..128183869,-p@chr6:128183862..128183869
-
Mm9::chr8:106657720..106657726,+p@chr8:106657720..106657726
+
Mm9::chr8:123594200..123594223,-p@chr8:123594200..123594223
-


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:0005529sugar binding0.00599056731030821
GO:0030246carbohydrate binding0.00608980077054871
GO:0050819negative regulation of coagulation0.0127084984748003
GO:0050818regulation of coagulation0.0142958856510686
GO:0005509calcium ion binding0.0211565737232751
GO:0007565female pregnancy0.038075356412911
GO:0007596blood coagulation0.038075356412911
GO:0007599hemostasis0.038075356412911
GO:0050817coagulation0.038075356412911
GO:0050878regulation of body fluid levels0.0444017506439279
GO:0042060wound healing0.0455437900789349



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
subdivision of trunk1.99e-1166
lung2.00e-0914
respiratory tube2.00e-0914
respiration organ2.00e-0914
pair of lungs2.00e-0914
lung primordium2.00e-0914
lung bud2.00e-0914
trunk region element1.61e-0879
epithelial bud1.06e-0717
splanchnic layer of lateral plate mesoderm1.68e-0733
thoracic cavity element8.83e-0717
thoracic segment organ8.83e-0717
thoracic cavity8.83e-0717
thoracic segment of trunk8.83e-0717
respiratory primordium8.83e-0717
endoderm of foregut8.83e-0717


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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