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MCL coexpression mm9:190: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.785137263183215,0.634271648879377,0.771980817066659,0.153960077537653,0.181270372704418,0.287738180838083,0.425042858278017,0,0,0,0.0636076933539527,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0965135502697456,0.236880264493592,0.302824565438938,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681778550615498,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0000278;mitotic cell cycle;0.033383528378983;108058,70099!GO:0022403;cell cycle phase;0.033383528378983;108058,70099!GO:0006583;melanin biosynthetic process from tyrosine;0.033383528378983;22293!GO:0005954;calcium- and calmodulin-dependent protein kinase complex;0.033383528378983;108058!GO:0060048;cardiac muscle contraction;0.033383528378983;108058!GO:0030315;T-tubule;0.0337504227630374;108058!GO:0006582;melanin metabolic process;0.0337504227630374;22293!GO:0042438;melanin biosynthetic process;0.0337504227630374;22293!GO:0006570;tyrosine metabolic process;0.0337504227630374;22293!GO:0007076;mitotic chromosome condensation;0.0337504227630374;70099!GO:0004683;calmodulin-dependent protein kinase activity;0.0337504227630374;108058!GO:0030261;chromosome condensation;0.0337504227630374;70099!GO:0000070;mitotic sister chromatid segregation;0.0337504227630374;70099!GO:0000819;sister chromatid segregation;0.0337504227630374;70099!GO:0000082;G1/S transition of mitotic cell cycle;0.0383449905330503;108058!GO:0022402;cell cycle process;0.0383449905330503;108058,70099!GO:0009072;aromatic amino acid family metabolic process;0.0383449905330503;22293!GO:0046148;pigment biosynthetic process;0.0383449905330503;22293!GO:0042383;sarcolemma;0.0383449905330503;108058!GO:0006941;striated muscle contraction;0.0383449905330503;108058!GO:0048066;pigmentation during development;0.0383449905330503;22293!GO:0042440;pigment metabolic process;0.0391198823684918;22293!GO:0046777;protein amino acid autophosphorylation;0.0394885477758235;108058!GO:0016540;protein autoprocessing;0.0394885477758235;108058!GO:0007049;cell cycle;0.0394885477758235;108058,70099!GO:0051325;interphase;0.0394885477758235;108058!GO:0051329;interphase of mitotic cell cycle;0.0394885477758235;108058!GO:0019748;secondary metabolic process;0.0394885477758235;22293!GO:0060047;heart contraction;0.0394885477758235;108058!GO:0003015;heart process;0.0394885477758235;108058!GO:0030155;regulation of cell adhesion;0.0394885477758235;!GO:0007059;chromosome segregation;0.0394885477758235;70099!GO:0005938;cell cortex;0.0394885477758235;!
|gostat_on_MCL_coexpression=GO:0000278;mitotic cell cycle;0.033383528378983;108058,70099!GO:0022403;cell cycle phase;0.033383528378983;108058,70099!GO:0006583;melanin biosynthetic process from tyrosine;0.033383528378983;22293!GO:0005954;calcium- and calmodulin-dependent protein kinase complex;0.033383528378983;108058!GO:0060048;cardiac muscle contraction;0.033383528378983;108058!GO:0030315;T-tubule;0.0337504227630374;108058!GO:0006582;melanin metabolic process;0.0337504227630374;22293!GO:0042438;melanin biosynthetic process;0.0337504227630374;22293!GO:0006570;tyrosine metabolic process;0.0337504227630374;22293!GO:0007076;mitotic chromosome condensation;0.0337504227630374;70099!GO:0004683;calmodulin-dependent protein kinase activity;0.0337504227630374;108058!GO:0030261;chromosome condensation;0.0337504227630374;70099!GO:0000070;mitotic sister chromatid segregation;0.0337504227630374;70099!GO:0000819;sister chromatid segregation;0.0337504227630374;70099!GO:0000082;G1/S transition of mitotic cell cycle;0.0383449905330503;108058!GO:0022402;cell cycle process;0.0383449905330503;108058,70099!GO:0009072;aromatic amino acid family metabolic process;0.0383449905330503;22293!GO:0046148;pigment biosynthetic process;0.0383449905330503;22293!GO:0042383;sarcolemma;0.0383449905330503;108058!GO:0006941;striated muscle contraction;0.0383449905330503;108058!GO:0048066;pigmentation during development;0.0383449905330503;22293!GO:0042440;pigment metabolic process;0.0391198823684918;22293!GO:0046777;protein amino acid autophosphorylation;0.0394885477758235;108058!GO:0016540;protein autoprocessing;0.0394885477758235;108058!GO:0007049;cell cycle;0.0394885477758235;108058,70099!GO:0051325;interphase;0.0394885477758235;108058!GO:0051329;interphase of mitotic cell cycle;0.0394885477758235;108058!GO:0019748;secondary metabolic process;0.0394885477758235;22293!GO:0060047;heart contraction;0.0394885477758235;108058!GO:0003015;heart process;0.0394885477758235;108058!GO:0030155;regulation of cell adhesion;0.0394885477758235;!GO:0007059;chromosome segregation;0.0394885477758235;70099!GO:0005938;cell cortex;0.0394885477758235;!
}}
}}

Revision as of 12:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:22026337..22026346,-p@chr10:22026337..22026346
-
Mm9::chr10:43548592..43548596,+p@chr10:43548592..43548596
+
Mm9::chr10:43717170..43717181,-p@chr10:43717170..43717181
-
Mm9::chr10:43717185..43717196,-p@chr10:43717185..43717196
-
Mm9::chr11:107330875..107330898,-p@chr11:107330875..107330898
-
Mm9::chr11:23669810..23669821,+p@chr11:23669810..23669821
+
Mm9::chr11:23670272..23670293,+p@chr11:23670272..23670293
+
Mm9::chr11:33833013..33833018,-p@chr11:33833013..33833018
-
Mm9::chr11:46200322..46200331,+p@chr11:46200322..46200331
+
Mm9::chr11:54336815..54336862,+p@chr11:54336815..54336862
+
Mm9::chr11:68911670..68911709,-p@chr11:68911670..68911709
-
Mm9::chr11:69733412..69733417,+p@chr11:69733412..69733417
+
Mm9::chr12:119615235..119615238,+p@chr12:119615235..119615238
+
Mm9::chr12:15821545..15821558,-p@chr12:15821545..15821558
-
Mm9::chr12:56547913..56547919,+p@chr12:56547913..56547919
+
Mm9::chr14:54817583..54817593,-p@chr14:54817583..54817593
-
Mm9::chr14:61665484..61665494,+p@chr14:61665484..61665494
+
Mm9::chr15:59356178..59356217,-p@chr15:59356178..59356217
-
Mm9::chr15:73006568..73006572,+p@chr15:73006568..73006572
+
Mm9::chr17:27501415..27501432,-p@chr17:27501415..27501432
-
Mm9::chr18:65481793..65481806,-p@chr18:65481793..65481806
-
Mm9::chr19:10806606..10806621,+p@chr19:10806606..10806621
+
Mm9::chr1:138476243..138476250,+p@chr1:138476243..138476250
+
Mm9::chr1:164501526..164501539,-p@chr1:164501526..164501539
-
Mm9::chr1:182286557..182286562,+p@chr1:182286557..182286562
+
Mm9::chr1:82829163..82829172,-p@chr1:82829163..82829172
-
Mm9::chr2:127141035..127141040,-p@chr2:127141035..127141040
-
Mm9::chr2:58013034..58013046,-p10@Cytip
Mm9::chr2:58013062..58013075,-p7@Cytip
Mm9::chr3:126299270..126299290,+p6@Camk2d
Mm9::chr3:68809849..68809868,+p@chr3:68809849..68809868
+
Mm9::chr3:87650806..87650827,-p@chr3:87650806..87650827
-
Mm9::chr4:133188153..133188179,+p@chr4:133188153..133188179
+
Mm9::chr4:155387843..155387856,-p@chr4:155387843..155387856
-
Mm9::chr4:155405070..155405083,+p@chr4:155405070..155405083
+
Mm9::chr4:32327445..32327449,+p@chr4:32327445..32327449
+
Mm9::chr4:32350855..32350868,+p@chr4:32350855..32350868
+
Mm9::chr5:114773355..114773367,+p@chr5:114773355..114773367
+
Mm9::chr5:22892293..22892317,-p@chr5:22892293..22892317
-
Mm9::chr6:108503087..108503091,-p@chr6:108503087..108503091
-
Mm9::chr6:122770872..122770875,-p3@ENSMUST00000112575
Mm9::chr6:125215345..125215360,-p@chr6:125215345..125215360
-
Mm9::chr6:145069654..145069666,+p@chr6:145069654..145069666
+
Mm9::chr6:48656532..48656548,+p@chr6:48656532..48656548
+
Mm9::chr7:29161745..29161757,+p@chr7:29161745..29161757
+
Mm9::chr8:14961880..14961899,+p@chr8:14961880..14961899
+
Mm9::chr8:84022563..84022566,+p@chr8:84022563..84022566
+
Mm9::chr8:84304468..84304473,-p@chr8:84304468..84304473
-
Mm9::chr9:107192291..107192309,+p@chr9:107192291..107192309
+
Mm9::chr9:107237091..107237100,+p@chr9:107237091..107237100
+
Mm9::chr9:108957297..108957310,-p@chr9:108957297..108957310
-
Mm9::chr9:44817346..44817354,-p@chr9:44817346..44817354
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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:0000278mitotic cell cycle0.033383528378983
GO:0022403cell cycle phase0.033383528378983
GO:0006583melanin biosynthetic process from tyrosine0.033383528378983
GO:0005954calcium- and calmodulin-dependent protein kinase complex0.033383528378983
GO:0060048cardiac muscle contraction0.033383528378983
GO:0030315T-tubule0.0337504227630374
GO:0006582melanin metabolic process0.0337504227630374
GO:0042438melanin biosynthetic process0.0337504227630374
GO:0006570tyrosine metabolic process0.0337504227630374
GO:0007076mitotic chromosome condensation0.0337504227630374
GO:0004683calmodulin-dependent protein kinase activity0.0337504227630374
GO:0030261chromosome condensation0.0337504227630374
GO:0000070mitotic sister chromatid segregation0.0337504227630374
GO:0000819sister chromatid segregation0.0337504227630374
GO:0000082G1/S transition of mitotic cell cycle0.0383449905330503
GO:0022402cell cycle process0.0383449905330503
GO:0009072aromatic amino acid family metabolic process0.0383449905330503
GO:0046148pigment biosynthetic process0.0383449905330503
GO:0042383sarcolemma0.0383449905330503
GO:0006941striated muscle contraction0.0383449905330503
GO:0048066pigmentation during development0.0383449905330503
GO:0042440pigment metabolic process0.0391198823684918
GO:0046777protein amino acid autophosphorylation0.0394885477758235
GO:0016540protein autoprocessing0.0394885477758235
GO:0007049cell cycle0.0394885477758235
GO:0051325interphase0.0394885477758235
GO:0051329interphase of mitotic cell cycle0.0394885477758235
GO:0019748secondary metabolic process0.0394885477758235
GO:0060047heart contraction0.0394885477758235
GO:0003015heart process0.0394885477758235
GO:0030155regulation of cell adhesion0.0394885477758235
GO:0007059chromosome segregation0.0394885477758235
GO:0005938cell cortex0.0394885477758235



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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