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MCL coexpression mm9:883: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004105;choline-phosphate cytidylyltransferase activity;0.0179691565596517;236899!GO:0001541;ovarian follicle development;0.0409124068227524;236899!GO:0022601;menstrual cycle phase;0.0409124068227524;236899!GO:0022602;menstrual cycle process;0.0409124068227524;236899!GO:0008585;female gonad development;0.0409124068227524;236899!GO:0046545;development of primary female sexual characteristics;0.0409124068227524;236899!GO:0046660;female sex differentiation;0.0409124068227524;236899!GO:0042698;menstrual cycle;0.0409124068227524;236899!GO:0008406;gonad development;0.0409124068227524;236899!GO:0048608;reproductive structure development;0.0409124068227524;236899!GO:0045137;development of primary sexual characteristics;0.0409124068227524;236899!GO:0008654;phospholipid biosynthetic process;0.0409124068227524;236899!GO:0048609;reproductive process in a multicellular organism;0.0409124068227524;236899!GO:0032504;multicellular organism reproduction;0.0409124068227524;236899!GO:0046467;membrane lipid biosynthetic process;0.0409124068227524;236899!GO:0007548;sex differentiation;0.0409124068227524;236899!GO:0003006;reproductive developmental process;0.0453468041274223;236899!
|gostat_on_MCL_coexpression=GO:0004105;choline-phosphate cytidylyltransferase activity;0.0179691565596517;236899!GO:0001541;ovarian follicle development;0.0409124068227524;236899!GO:0022601;menstrual cycle phase;0.0409124068227524;236899!GO:0022602;menstrual cycle process;0.0409124068227524;236899!GO:0008585;female gonad development;0.0409124068227524;236899!GO:0046545;development of primary female sexual characteristics;0.0409124068227524;236899!GO:0046660;female sex differentiation;0.0409124068227524;236899!GO:0042698;menstrual cycle;0.0409124068227524;236899!GO:0008406;gonad development;0.0409124068227524;236899!GO:0048608;reproductive structure development;0.0409124068227524;236899!GO:0045137;development of primary sexual characteristics;0.0409124068227524;236899!GO:0008654;phospholipid biosynthetic process;0.0409124068227524;236899!GO:0048609;reproductive process in a multicellular organism;0.0409124068227524;236899!GO:0032504;multicellular organism reproduction;0.0409124068227524;236899!GO:0046467;membrane lipid biosynthetic process;0.0409124068227524;236899!GO:0007548;sex differentiation;0.0409124068227524;236899!GO:0003006;reproductive developmental process;0.0453468041274223;236899!
|ontology_enrichment_celltype=CL:0000117!3.31e-13!23;CL:0000337!3.31e-13!23;CL:0000540!2.58e-12!33;CL:0000047!2.58e-12!33;CL:0000031!2.58e-12!33;CL:0000404!2.58e-12!33;CL:0000393!6.43e-10!39;CL:0000211!6.43e-10!39;CL:0002319!6.48e-10!43;CL:0000221!9.11e-10!44;CL:0000133!9.11e-10!44;CL:0000055!2.78e-08!49
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!1.80e-17!64;UBERON:0003075!1.80e-17!64;UBERON:0007284!1.80e-17!64;UBERON:0001017!7.28e-17!73;UBERON:0001016!4.97e-16!75;UBERON:0000073!6.49e-15!54;UBERON:0004121!1.66e-14!95;UBERON:0000924!1.66e-14!95;UBERON:0006601!1.66e-14!95;UBERON:0001049!2.41e-14!52;UBERON:0005068!2.41e-14!52;UBERON:0006241!2.41e-14!52;UBERON:0007135!2.41e-14!52;UBERON:0010371!4.66e-14!73;UBERON:0003056!1.69e-13!49;UBERON:0000955!2.34e-11!47;UBERON:0006238!2.34e-11!47;UBERON:0002616!2.52e-11!46;UBERON:0003080!1.48e-10!40;UBERON:0002780!3.62e-10!39;UBERON:0001890!3.62e-10!39;UBERON:0006240!3.62e-10!39;UBERON:0002020!7.61e-10!34;UBERON:0010314!7.81e-10!92;UBERON:0000922!3.15e-08!320;UBERON:0000468!1.54e-07!333;UBERON:0003528!2.75e-07!29;UBERON:0002791!2.75e-07!29;UBERON:0001893!2.75e-07!29
}}
}}

Revision as of 21:24, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:102180696..102180760,-p2@Ubtf
Mm9::chr11:94871166..94871204,+p2@Samd14
Mm9::chr11:94871212..94871233,+p4@Samd14
Mm9::chr11:94871250..94871261,+p11@Samd14
Mm9::chr11:94871280..94871343,+p1@Samd14
Mm9::chr11:94871558..94871590,+p5@Samd14
Mm9::chr11:94871607..94871639,-p@chr11:94871607..94871639
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Mm9::chrX:90920427..90920500,+p1@Pcyt1b


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:0004105choline-phosphate cytidylyltransferase activity0.0179691565596517
GO:0001541ovarian follicle development0.0409124068227524
GO:0022601menstrual cycle phase0.0409124068227524
GO:0022602menstrual cycle process0.0409124068227524
GO:0008585female gonad development0.0409124068227524
GO:0046545development of primary female sexual characteristics0.0409124068227524
GO:0046660female sex differentiation0.0409124068227524
GO:0042698menstrual cycle0.0409124068227524
GO:0008406gonad development0.0409124068227524
GO:0048608reproductive structure development0.0409124068227524
GO:0045137development of primary sexual characteristics0.0409124068227524
GO:0008654phospholipid biosynthetic process0.0409124068227524
GO:0048609reproductive process in a multicellular organism0.0409124068227524
GO:0032504multicellular organism reproduction0.0409124068227524
GO:0046467membrane lipid biosynthetic process0.0409124068227524
GO:0007548sex differentiation0.0409124068227524
GO:0003006reproductive developmental process0.0453468041274223



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><br>

Uber Anatomy
Ontology termp-valuen
neurectoderm1.80e-1764
neural plate1.80e-1764
presumptive neural plate1.80e-1764
central nervous system7.28e-1773
nervous system4.97e-1675
regional part of nervous system6.49e-1554
ectoderm-derived structure1.66e-1495
ectoderm1.66e-1495
presumptive ectoderm1.66e-1495
neural tube2.41e-1452
neural rod2.41e-1452
future spinal cord2.41e-1452
neural keel2.41e-1452
ecto-epithelium4.66e-1473
pre-chordal neural plate1.69e-1349
brain2.34e-1147
future brain2.34e-1147
regional part of brain2.52e-1146
anterior neural tube1.48e-1040
regional part of forebrain3.62e-1039
forebrain3.62e-1039
future forebrain3.62e-1039
gray matter7.61e-1034
structure with developmental contribution from neural crest7.81e-1092
embryo3.15e-08320
multi-cellular organism1.54e-07333
brain grey matter2.75e-0729
regional part of telencephalon2.75e-0729
telencephalon2.75e-0729


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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