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MCL coexpression mm9:258: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0959343498639139,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.08395853118863,0.392678174677995,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.16756852144777,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0019835;cytolysis;2.53419807642747e-14;18646,14942,14940,14943,14939,14941,14944!GO:0004252;serine-type endopeptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0017171;serine hydrolase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0008236;serine-type peptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0005615;extracellular space;3.26456462623991e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0008219;cell death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0044421;extracellular region part;3.96799342549326e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0016265;death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0048468;cell development;1.75622708928195e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939!GO:0048869;cellular developmental process;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0030154;cell differentiation;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0004175;endopeptidase activity;6.86183091701417e-05;14942,14940,14943,14939,14941,14944!GO:0006508;proteolysis;0.00052187985334583;14942,14940,14943,14939,14941,14944!GO:0008233;peptidase activity;0.000803721231104847;14942,14940,14943,14939,14941,14944!GO:0032502;developmental process;0.00322055582686556;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0005605;basal lamina;0.00569053171091571;226519,16782!GO:0016787;hydrolase activity;0.00923687981078232;14942,14940,242341,19279,14943,14939,14941,14944!GO:0004278;granzyme B activity;0.014416808195913;14939!GO:0032426;stereocilium bundle tip;0.014416808195913;22295!GO:0008626;induction of apoptosis by granzyme;0.014416808195913;14939!GO:0005201;extracellular matrix structural constituent;0.0231198544623718;226519,16782!GO:0005604;basement membrane;0.0235484112202604;226519,16782!GO:0001917;photoreceptor inner segment;0.0332367573478983;22295!GO:0043259;laminin-10 complex;0.0332367573478983;226519!GO:0044420;extracellular matrix part;0.0416924805907267;226519,16782!GO:0048563;post-embryonic organ morphogenesis;0.0479613305053664;22295!GO:0009401;phosphoenolpyruvate-dependent sugar phosphotransferase system;0.0479613305053664;22295!GO:0060013;righting reflex;0.0479613305053664;22295!
|gostat_on_MCL_coexpression=GO:0019835;cytolysis;2.53419807642747e-14;18646,14942,14940,14943,14939,14941,14944!GO:0004252;serine-type endopeptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0017171;serine hydrolase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0008236;serine-type peptidase activity;2.59989400226143e-06;14942,14940,14943,14939,14941,14944!GO:0005615;extracellular space;3.26456462623991e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0008219;cell death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0044421;extracellular region part;3.96799342549326e-06;18646,14940,226519,22295,14941,14944,14942,14778,19279,14943,14939,16782!GO:0016265;death;3.96799342549326e-06;18646,14940,14941,14944,140580,14942,14943,14939!GO:0048468;cell development;1.75622708928195e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939!GO:0048869;cellular developmental process;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0030154;cell differentiation;4.46779780721031e-05;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0004175;endopeptidase activity;6.86183091701417e-05;14942,14940,14943,14939,14941,14944!GO:0006508;proteolysis;0.00052187985334583;14942,14940,14943,14939,14941,14944!GO:0008233;peptidase activity;0.000803721231104847;14942,14940,14943,14939,14941,14944!GO:0032502;developmental process;0.00322055582686556;18646,14940,22295,14941,14944,140580,14942,14943,14939,21928!GO:0005605;basal lamina;0.00569053171091571;226519,16782!GO:0016787;hydrolase activity;0.00923687981078232;14942,14940,242341,19279,14943,14939,14941,14944!GO:0004278;granzyme B activity;0.014416808195913;14939!GO:0032426;stereocilium bundle tip;0.014416808195913;22295!GO:0008626;induction of apoptosis by granzyme;0.014416808195913;14939!GO:0005201;extracellular matrix structural constituent;0.0231198544623718;226519,16782!GO:0005604;basement membrane;0.0235484112202604;226519,16782!GO:0001917;photoreceptor inner segment;0.0332367573478983;22295!GO:0043259;laminin-10 complex;0.0332367573478983;226519!GO:0044420;extracellular matrix part;0.0416924805907267;226519,16782!GO:0048563;post-embryonic organ morphogenesis;0.0479613305053664;22295!GO:0009401;phosphoenolpyruvate-dependent sugar phosphotransferase system;0.0479613305053664;22295!GO:0060013;righting reflex;0.0479613305053664;22295!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115614273..115614299,+p17@Ptprr
Mm9::chr10:59794676..59794683,-p8@Cdh23
Mm9::chr10:60760547..60760556,+p3@Prf1
Mm9::chr10:60760557..60760572,+p1@Prf1
Mm9::chr11:54716349..54716360,+p2@Gpx3
Mm9::chr12:112687835..112687862,+p2@Tnfaip2
Mm9::chr13:20203373..20203384,+p22@Elmo1
Mm9::chr14:100158827..100158833,+p@chr14:100158827..100158833
+
Mm9::chr14:56739460..56739464,-p2@Gzme
Mm9::chr14:56751427..56751432,-p1@Gzmd
p1@Gzme
Mm9::chr14:56778427..56778434,-p1@Gzmg
Mm9::chr14:56830260..56830267,-p1@Gzmf
Mm9::chr14:56853487..56853492,-p1@Gzmc
p2@Gzmf
Mm9::chr14:56857569..56857584,-p@chr14:56857569..56857584
-
Mm9::chr14:56881009..56881024,-p2@Gzmb
Mm9::chr14:56881070..56881085,-p1@Gzmb
Mm9::chr14:63810770..63810774,-p@chr14:63810770..63810774
-
Mm9::chr1:12980554..12980563,-p4@Slco5a1
Mm9::chr1:154974262..154974286,-p@chr1:154974262..154974286
-
Mm9::chr1:174532650..174532675,-p1@Fcrl6
Mm9::chr1:174532686..174532697,-p2@Fcrl6
Mm9::chr1:36700822..36700853,-p@chr1:36700822..36700853
-
Mm9::chr1:95616230..95616234,+p@chr1:95616230..95616234
+
Mm9::chr2:124475078..124475084,+p@chr2:124475078..124475084
+
Mm9::chr2:26526838..26526843,-p1@Lcn4
Mm9::chr3:69400164..69400168,-p@chr3:69400164..69400168
-
Mm9::chr4:19849746..19849761,-p2@Atp6v0d2
Mm9::chr6:122232828..122232839,-p1@Klrg1
Mm9::chr7:121714477..121714501,+p@chr7:121714477..121714501
+
Mm9::chr7:129057811..129057817,+p@chr7:129057811..129057817
+
Mm9::chr9:108382273..108382282,+p3@Lamb2
Mm9::chr9:21574303..21574331,-p@chr9:21574303..21574331
-


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:0019835cytolysis2.53419807642747e-14
GO:0004252serine-type endopeptidase activity2.59989400226143e-06
GO:0017171serine hydrolase activity2.59989400226143e-06
GO:0008236serine-type peptidase activity2.59989400226143e-06
GO:0005615extracellular space3.26456462623991e-06
GO:0008219cell death3.96799342549326e-06
GO:0044421extracellular region part3.96799342549326e-06
GO:0016265death3.96799342549326e-06
GO:0048468cell development1.75622708928195e-05
GO:0048869cellular developmental process4.46779780721031e-05
GO:0030154cell differentiation4.46779780721031e-05
GO:0004175endopeptidase activity6.86183091701417e-05
GO:0006508proteolysis0.00052187985334583
GO:0008233peptidase activity0.000803721231104847
GO:0032502developmental process0.00322055582686556
GO:0005605basal lamina0.00569053171091571
GO:0016787hydrolase activity0.00923687981078232
GO:0004278granzyme B activity0.014416808195913
GO:0032426stereocilium bundle tip0.014416808195913
GO:0008626induction of apoptosis by granzyme0.014416808195913
GO:0005201extracellular matrix structural constituent0.0231198544623718
GO:0005604basement membrane0.0235484112202604
GO:0001917photoreceptor inner segment0.0332367573478983
GO:0043259laminin-10 complex0.0332367573478983
GO:0044420extracellular matrix part0.0416924805907267
GO:0048563post-embryonic organ morphogenesis0.0479613305053664
GO:0009401phosphoenolpyruvate-dependent sugar phosphotransferase system0.0479613305053664
GO:0060013righting reflex0.0479613305053664



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)

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