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MCL coexpression mm9:465: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0004782;sulfinoalanine decarboxylase activity;0.0025199956022708;246277!GO:0046439;L-cysteine metabolic process;0.0025199956022708;246277!GO:0019448;L-cysteine catabolic process;0.0025199956022708;246277!GO:0019452;L-cysteine catabolic process to taurine;0.0025199956022708;246277!GO:0009093;cysteine catabolic process;0.0025199956022708;246277!GO:0019530;taurine metabolic process;0.0025199956022708;246277!GO:0044273;sulfur compound catabolic process;0.00283483972454542;246277!GO:0000098;sulfur amino acid catabolic process;0.00283483972454542;246277!GO:0006534;cysteine metabolic process;0.00419930234896127;246277!GO:0009071;serine family amino acid catabolic process;0.00604600142849892;246277!GO:0000096;sulfur amino acid metabolic process;0.0107011816398053;246277!GO:0009069;serine family amino acid metabolic process;0.0107011816398053;246277!GO:0016831;carboxy-lyase activity;0.0151000999805382;246277!GO:0016830;carbon-carbon lyase activity;0.0204795160219966;246277!GO:0009063;amino acid catabolic process;0.021682605905944;246277!GO:0030170;pyridoxal phosphate binding;0.021682605905944;246277!GO:0009310;amine catabolic process;0.0234504393678624;246277!GO:0044270;nitrogen compound catabolic process;0.0234504393678624;246277!GO:0006790;sulfur metabolic process;0.0237978560598355;246277!GO:0006575;amino acid derivative metabolic process;0.0327330241633306;246277!GO:0004867;serine-type endopeptidase inhibitor activity;0.0358785136565338;380780!GO:0019842;vitamin binding;0.0358785136565338;246277!GO:0004866;endopeptidase inhibitor activity;0.0455879901011233;380780!GO:0030414;protease inhibitor activity;0.0455879901011233;380780!GO:0016829;lyase activity;0.0455879901011233;246277!GO:0048037;cofactor binding;0.0484061985406142;246277!
|gostat_on_MCL_coexpression=GO:0004782;sulfinoalanine decarboxylase activity;0.0025199956022708;246277!GO:0046439;L-cysteine metabolic process;0.0025199956022708;246277!GO:0019448;L-cysteine catabolic process;0.0025199956022708;246277!GO:0019452;L-cysteine catabolic process to taurine;0.0025199956022708;246277!GO:0009093;cysteine catabolic process;0.0025199956022708;246277!GO:0019530;taurine metabolic process;0.0025199956022708;246277!GO:0044273;sulfur compound catabolic process;0.00283483972454542;246277!GO:0000098;sulfur amino acid catabolic process;0.00283483972454542;246277!GO:0006534;cysteine metabolic process;0.00419930234896127;246277!GO:0009071;serine family amino acid catabolic process;0.00604600142849892;246277!GO:0000096;sulfur amino acid metabolic process;0.0107011816398053;246277!GO:0009069;serine family amino acid metabolic process;0.0107011816398053;246277!GO:0016831;carboxy-lyase activity;0.0151000999805382;246277!GO:0016830;carbon-carbon lyase activity;0.0204795160219966;246277!GO:0009063;amino acid catabolic process;0.021682605905944;246277!GO:0030170;pyridoxal phosphate binding;0.021682605905944;246277!GO:0009310;amine catabolic process;0.0234504393678624;246277!GO:0044270;nitrogen compound catabolic process;0.0234504393678624;246277!GO:0006790;sulfur metabolic process;0.0237978560598355;246277!GO:0006575;amino acid derivative metabolic process;0.0327330241633306;246277!GO:0004867;serine-type endopeptidase inhibitor activity;0.0358785136565338;380780!GO:0019842;vitamin binding;0.0358785136565338;246277!GO:0004866;endopeptidase inhibitor activity;0.0455879901011233;380780!GO:0030414;protease inhibitor activity;0.0455879901011233;380780!GO:0016829;lyase activity;0.0455879901011233;246277!GO:0048037;cofactor binding;0.0484061985406142;246277!
}}
}}

Revision as of 12:42, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:105228129..105228156,-p2@Serpina11
Mm9::chr12:105228160..105228182,-p1@Serpina11
Mm9::chr15:102007749..102007752,+p@chr15:102007749..102007752
+
Mm9::chr15:102019365..102019382,-p5@Csad
Mm9::chr15:102019414..102019427,-p6@Csad
Mm9::chr15:102019436..102019461,-p3@Csad
Mm9::chr15:102019463..102019481,-p2@Csad
Mm9::chr18:20832196..20832271,-p@chr18:20832196..20832271
-
Mm9::chr18:65380476..65380484,-p@chr18:65380476..65380484
-
Mm9::chr1:174825179..174825194,-p2@Apcs
Mm9::chr2:157643694..157643719,+p@chr2:157643694..157643719
+
Mm9::chr3:82835369..82835408,-p@chr3:82835369..82835408
-
Mm9::chr3:82847241..82847271,+p@chr3:82847241..82847271
+
Mm9::chr3:82847323..82847360,+p@chr3:82847323..82847360
+
Mm9::chr3:82847793..82847801,+p@chr3:82847793..82847801
+
Mm9::chr9:103123231..103123264,+p@chr9:103123231..103123264
+


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:0004782sulfinoalanine decarboxylase activity0.0025199956022708
GO:0046439L-cysteine metabolic process0.0025199956022708
GO:0019448L-cysteine catabolic process0.0025199956022708
GO:0019452L-cysteine catabolic process to taurine0.0025199956022708
GO:0009093cysteine catabolic process0.0025199956022708
GO:0019530taurine metabolic process0.0025199956022708
GO:0044273sulfur compound catabolic process0.00283483972454542
GO:0000098sulfur amino acid catabolic process0.00283483972454542
GO:0006534cysteine metabolic process0.00419930234896127
GO:0009071serine family amino acid catabolic process0.00604600142849892
GO:0000096sulfur amino acid metabolic process0.0107011816398053
GO:0009069serine family amino acid metabolic process0.0107011816398053
GO:0016831carboxy-lyase activity0.0151000999805382
GO:0016830carbon-carbon lyase activity0.0204795160219966
GO:0009063amino acid catabolic process0.021682605905944
GO:0030170pyridoxal phosphate binding0.021682605905944
GO:0009310amine catabolic process0.0234504393678624
GO:0044270nitrogen compound catabolic process0.0234504393678624
GO:0006790sulfur metabolic process0.0237978560598355
GO:0006575amino acid derivative metabolic process0.0327330241633306
GO:0004867serine-type endopeptidase inhibitor activity0.0358785136565338
GO:0019842vitamin binding0.0358785136565338
GO:0004866endopeptidase inhibitor activity0.0455879901011233
GO:0030414protease inhibitor activity0.0455879901011233
GO:0016829lyase activity0.0455879901011233
GO:0048037cofactor binding0.0484061985406142



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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