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MCL coexpression mm9:3172: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004069;aspartate transaminase activity;0.0101585527374333;14719!GO:0044429;mitochondrial part;0.0101585527374333;14719,94063!GO:0000315;organellar large ribosomal subunit;0.0270649807712208;94063!GO:0005762;mitochondrial large ribosomal subunit;0.0270649807712208;94063!GO:0005739;mitochondrion;0.0270649807712208;14719,94063!GO:0008483;transaminase activity;0.0270649807712208;14719!GO:0015934;large ribosomal subunit;0.0270649807712208;94063!GO:0016769;transferase activity, transferring nitrogenous groups;0.0270649807712208;14719!GO:0009058;biosynthetic process;0.0270649807712208;14719,94063!GO:0000313;organellar ribosome;0.0270649807712208;94063!GO:0005761;mitochondrial ribosome;0.0270649807712208;94063!GO:0030170;pyridoxal phosphate binding;0.0281665330698366;14719!GO:0031980;mitochondrial lumen;0.0281665330698366;94063!GO:0005759;mitochondrial matrix;0.0281665330698366;94063!GO:0033279;ribosomal subunit;0.0307453010775401;94063!GO:0006869;lipid transport;0.0343911761270973;14719!GO:0019842;vitamin binding;0.0458887217228312;14719!
|gostat_on_MCL_coexpression=GO:0004069;aspartate transaminase activity;0.0101585527374333;14719!GO:0044429;mitochondrial part;0.0101585527374333;14719,94063!GO:0000315;organellar large ribosomal subunit;0.0270649807712208;94063!GO:0005762;mitochondrial large ribosomal subunit;0.0270649807712208;94063!GO:0005739;mitochondrion;0.0270649807712208;14719,94063!GO:0008483;transaminase activity;0.0270649807712208;14719!GO:0015934;large ribosomal subunit;0.0270649807712208;94063!GO:0016769;transferase activity, transferring nitrogenous groups;0.0270649807712208;14719!GO:0009058;biosynthetic process;0.0270649807712208;14719,94063!GO:0000313;organellar ribosome;0.0270649807712208;94063!GO:0005761;mitochondrial ribosome;0.0270649807712208;94063!GO:0030170;pyridoxal phosphate binding;0.0281665330698366;14719!GO:0031980;mitochondrial lumen;0.0281665330698366;94063!GO:0005759;mitochondrial matrix;0.0281665330698366;94063!GO:0033279;ribosomal subunit;0.0307453010775401;94063!GO:0006869;lipid transport;0.0343911761270973;14719!GO:0019842;vitamin binding;0.0458887217228312;14719!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003914!1.42e-16!47;UBERON:0000025!1.74e-13!114;UBERON:0004111!3.29e-13!122;UBERON:0009854!6.69e-11!23;UBERON:0009856!6.69e-11!23;UBERON:0003103!7.61e-11!43;UBERON:0002107!7.66e-11!22;UBERON:0007499!7.66e-11!22;UBERON:0006925!7.66e-11!22;UBERON:0009497!7.66e-11!22;UBERON:0000015!7.66e-11!22;UBERON:0002423!7.66e-11!22;UBERON:0006235!7.66e-11!22;UBERON:0008835!7.66e-11!22;UBERON:0003894!7.66e-11!22;UBERON:0004161!7.66e-11!22;UBERON:0008836!7.66e-11!22;UBERON:0003104!2.83e-10!61;UBERON:0009142!2.83e-10!61;UBERON:0005172!4.48e-09!49;UBERON:0005173!4.48e-09!49;UBERON:0002417!4.48e-09!49;UBERON:0000916!4.48e-09!49;UBERON:0002365!1.60e-08!25;UBERON:0002330!1.60e-08!25;UBERON:0010314!2.03e-08!92;UBERON:0005256!7.34e-08!45;UBERON:0007100!2.05e-07!18;UBERON:0000948!2.05e-07!18;UBERON:0005498!2.05e-07!18;UBERON:0004140!2.05e-07!18;UBERON:0009881!2.05e-07!18;UBERON:0004141!2.05e-07!18;UBERON:0003084!2.05e-07!18;UBERON:0007005!2.05e-07!18;UBERON:0004139!2.05e-07!18;UBERON:0004291!2.05e-07!18;UBERON:0000073!8.04e-07!54
}}
}}

Revision as of 19:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:11844847..11844896,+p1@Mrpl16
Mm9::chr8:98412264..98412275,-p2@Got2
Mm9::chr8:98412277..98412315,-p1@Got2


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:0004069aspartate transaminase activity0.0101585527374333
GO:0044429mitochondrial part0.0101585527374333
GO:0000315organellar large ribosomal subunit0.0270649807712208
GO:0005762mitochondrial large ribosomal subunit0.0270649807712208
GO:0005739mitochondrion0.0270649807712208
GO:0008483transaminase activity0.0270649807712208
GO:0015934large ribosomal subunit0.0270649807712208
GO:0016769transferase activity, transferring nitrogenous groups0.0270649807712208
GO:0009058biosynthetic process0.0270649807712208
GO:0000313organellar ribosome0.0270649807712208
GO:0005761mitochondrial ribosome0.0270649807712208
GO:0030170pyridoxal phosphate binding0.0281665330698366
GO:0031980mitochondrial lumen0.0281665330698366
GO:0005759mitochondrial matrix0.0281665330698366
GO:0033279ribosomal subunit0.0307453010775401
GO:0006869lipid transport0.0343911761270973
GO:0019842vitamin binding0.0458887217228312



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
epithelial tube1.42e-1647
tube1.74e-13114
anatomical conduit3.29e-13122
digestive tract diverticulum6.69e-1123
sac6.69e-1123
compound organ7.61e-1143
liver7.66e-1122
epithelial sac7.66e-1122
digestive gland7.66e-1122
epithelium of foregut-midgut junction7.66e-1122
anatomical boundary7.66e-1122
hepatobiliary system7.66e-1122
foregut-midgut junction7.66e-1122
hepatic diverticulum7.66e-1122
liver primordium7.66e-1122
septum transversum7.66e-1122
liver bud7.66e-1122
mesenchyme2.83e-1061
entire embryonic mesenchyme2.83e-1061
abdomen element4.48e-0949
abdominal segment element4.48e-0949
abdominal segment of trunk4.48e-0949
abdomen4.48e-0949
exocrine gland1.60e-0825
exocrine system1.60e-0825
structure with developmental contribution from neural crest2.03e-0892
trunk mesenchyme7.34e-0845
primary circulatory organ2.05e-0718
heart2.05e-0718
primitive heart tube2.05e-0718
primary heart field2.05e-0718
anterior lateral plate mesoderm2.05e-0718
heart tube2.05e-0718
heart primordium2.05e-0718
cardiac mesoderm2.05e-0718
cardiogenic plate2.05e-0718
heart rudiment2.05e-0718
regional part of nervous system8.04e-0754


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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