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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0002266;follicular dendritic cell activation;0.018015548174587;18034!GO:0002268;follicular dendritic cell differentiation;0.018015548174587;18034!GO:0016149;translation release factor activity, codon specific;0.018015548174587;225363!GO:0010467;gene expression;0.018015548174587;80859,16477,225363,18034,56706!GO:0008023;transcription elongation factor complex;0.018015548174587;56706!GO:0008079;translation termination factor activity;0.018015548174587;225363!GO:0006415;translational termination;0.018015548174587;225363!GO:0003747;translation release factor activity;0.018015548174587;225363!GO:0006355;regulation of transcription, DNA-dependent;0.0187493882502284;80859,16477,18034,56706!GO:0003700;transcription factor activity;0.0187493882502284;80859,16477,18034!GO:0002467;germinal center formation;0.0187493882502284;18034!GO:0006351;transcription, DNA-dependent;0.0187493882502284;80859,16477,18034,56706!GO:0032774;RNA biosynthetic process;0.0187493882502284;80859,16477,18034,56706!GO:0045449;regulation of transcription;0.0187493882502284;80859,16477,18034,56706!GO:0048536;spleen development;0.0187493882502284;18034!GO:0019219;regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0187493882502284;80859,16477,18034,56706!GO:0006350;transcription;0.0187493882502284;80859,16477,18034,56706!GO:0010468;regulation of gene expression;0.0200238177225507;80859,16477,18034,56706!GO:0031323;regulation of cellular metabolic process;0.0215902506335981;80859,16477,18034,56706!GO:0043624;cellular protein complex disassembly;0.0215902506335981;225363!GO:0043241;protein complex disassembly;0.0217480607147832;225363!GO:0019222;regulation of metabolic process;0.0217480607147832;80859,16477,18034,56706!GO:0032984;macromolecular complex disassembly;0.0218959546766158;225363!GO:0016070;RNA metabolic process;0.0219455121922195;80859,16477,18034,56706!GO:0048535;lymph node development;0.0244488528490187;18034!GO:0051726;regulation of cell cycle;0.0261174403194484;16477,56706!GO:0022411;cellular component disassembly;0.0292719506150735;225363!GO:0003676;nucleic acid binding;0.0394693602620986;80859,16477,225363,18034!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0498253690261291;80859,16477,18034,56706!}}
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0002266;follicular dendritic cell activation;0.018015548174587;18034!GO:0002268;follicular dendritic cell differentiation;0.018015548174587;18034!GO:0016149;translation release factor activity, codon specific;0.018015548174587;225363!GO:0010467;gene expression;0.018015548174587;80859,16477,225363,18034,56706!GO:0008023;transcription elongation factor complex;0.018015548174587;56706!GO:0008079;translation termination factor activity;0.018015548174587;225363!GO:0006415;translational termination;0.018015548174587;225363!GO:0003747;translation release factor activity;0.018015548174587;225363!GO:0006355;regulation of transcription, DNA-dependent;0.0187493882502284;80859,16477,18034,56706!GO:0003700;transcription factor activity;0.0187493882502284;80859,16477,18034!GO:0002467;germinal center formation;0.0187493882502284;18034!GO:0006351;transcription, DNA-dependent;0.0187493882502284;80859,16477,18034,56706!GO:0032774;RNA biosynthetic process;0.0187493882502284;80859,16477,18034,56706!GO:0045449;regulation of transcription;0.0187493882502284;80859,16477,18034,56706!GO:0048536;spleen development;0.0187493882502284;18034!GO:0019219;regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0187493882502284;80859,16477,18034,56706!GO:0006350;transcription;0.0187493882502284;80859,16477,18034,56706!GO:0010468;regulation of gene expression;0.0200238177225507;80859,16477,18034,56706!GO:0031323;regulation of cellular metabolic process;0.0215902506335981;80859,16477,18034,56706!GO:0043624;cellular protein complex disassembly;0.0215902506335981;225363!GO:0043241;protein complex disassembly;0.0217480607147832;225363!GO:0019222;regulation of metabolic process;0.0217480607147832;80859,16477,18034,56706!GO:0032984;macromolecular complex disassembly;0.0218959546766158;225363!GO:0016070;RNA metabolic process;0.0219455121922195;80859,16477,18034,56706!GO:0048535;lymph node development;0.0244488528490187;18034!GO:0051726;regulation of cell cycle;0.0261174403194484;16477,56706!GO:0022411;cellular component disassembly;0.0292719506150735;225363!GO:0003676;nucleic acid binding;0.0394693602620986;80859,16477,225363,18034!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0498253690261291;80859,16477,18034,56706!
}}

Revision as of 11:06, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:12912536..12912606,-p@chr10:12912536..12912606
-
Mm9::chr10:62486081..62486100,+p@chr10:62486081..62486100
+
Mm9::chr11:69223942..69223955,-p@chr11:69223942..69223955
-
Mm9::chr11:69224857..69224885,+p@chr11:69224857..69224885
+
Mm9::chr11:98064472..98064487,-p@chr11:98064472..98064487
-
Mm9::chr11:98820837..98820841,-p@chr11:98820837..98820841
-
Mm9::chr12:56590796..56590811,-p@chr12:56590796..56590811
-
Mm9::chr15:101077003..101077018,+p@chr15:101077003..101077018
+
Mm9::chr16:55822241..55822258,-p1@Nfkbiz
Mm9::chr16:94792724..94792748,-p@chr16:94792724..94792748
-
Mm9::chr18:35091545..35091574,-p2@Etf1
Mm9::chr19:46378880..46378896,+p8@Nfkb2
Mm9::chr19:46379032..46379054,-p@chr19:46379032..46379054
-
Mm9::chr1:182781262..182781303,+p1@BC031781
Mm9::chr3:65762096..65762111,-p1@Ccnl1
Mm9::chr4:33335475..33335493,-p1@Pnrc1
Mm9::chr5:22938641..22938646,+p@chr5:22938641..22938646
+
Mm9::chr6:56664952..56664965,+p4@Avl9
Mm9::chr8:72240726..72240742,-p3@Zfp869
Mm9::chr8:87186740..87186758,-p1@Ier2
Mm9::chr8:87502000..87502015,-p@chr8:87502000..87502015
-
Mm9::chr8:87502350..87502362,-p2@Junb
Mm9::chr8:87502423..87502439,-p4@Junb
Mm9::chr8:87502608..87502623,-p1@Junb
Mm9::chrX:48371786..48371860,-p@chrX:48371786..48371860
-


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:0002266follicular dendritic cell activation0.018015548174587
GO:0002268follicular dendritic cell differentiation0.018015548174587
GO:0016149translation release factor activity, codon specific0.018015548174587
GO:0010467gene expression0.018015548174587
GO:0008023transcription elongation factor complex0.018015548174587
GO:0008079translation termination factor activity0.018015548174587
GO:0006415translational termination0.018015548174587
GO:0003747translation release factor activity0.018015548174587
GO:0006355regulation of transcription, DNA-dependent0.0187493882502284
GO:0003700transcription factor activity0.0187493882502284
GO:0002467germinal center formation0.0187493882502284
GO:0006351transcription, DNA-dependent0.0187493882502284
GO:0032774RNA biosynthetic process0.0187493882502284
GO:0045449regulation of transcription0.0187493882502284
GO:0048536spleen development0.0187493882502284
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0187493882502284
GO:0006350transcription0.0187493882502284
GO:0010468regulation of gene expression0.0200238177225507
GO:0031323regulation of cellular metabolic process0.0215902506335981
GO:0043624cellular protein complex disassembly0.0215902506335981
GO:0043241protein complex disassembly0.0217480607147832
GO:0019222regulation of metabolic process0.0217480607147832
GO:0032984macromolecular complex disassembly0.0218959546766158
GO:0016070RNA metabolic process0.0219455121922195
GO:0048535lymph node development0.0244488528490187
GO:0051726regulation of cell cycle0.0261174403194484
GO:0022411cellular component disassembly0.0292719506150735
GO:0003676nucleic acid binding0.0394693602620986
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0498253690261291



Relative expression of the co-expression cluster over median <br>Analyst:


"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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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