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MCL coexpression mm9:2887: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.930796049779409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.153880826611225,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.755444009801006,0.218555320865808,1.17782254070292,1.04572792611609,0.727507022082138,0.72530523208327,0,0,0,0,0,0,0.559920262766389,0.71866174498074,0,0.30460546191316,0.658696105011154,0,0,0,0.490969359070988,0.64913662990114,0.15068229631276,0.257687123905543,0.152487072037699,0.330941898710929,0.366462414722097,0,0,0,0,0.179192416738202,0.164596587144155,0.619643252789235,0.915269149618372,0.408704566468946,0.325665874540913,0.193893011938994,0.475144664304753,0.562490009537864,0.496317222511774,0.55745814449709,0.0317017435824471,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.107781924973909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.681797353649799,0.570870543844938,0,0,0,0,0.161179842546876,0.451786805560604,0.176848416016191,0.378505927175087,0.305966219492192,0.0819907263755358,0.257967923814717,0,0,0,0.0829439327499637,0.143127679930209,0,0.187573281223881,0,0.148670198047907,0.333048766605744,0.265599679938124,0,0.21661553485341,0.0752205997629372,0.130945290313773,0.0860734338295156,0.192035967274322,0,0,0,0,0,0,0,0,0,0,0,0.0623063220167371,0,0,0,0,0,0,0,0,0,0.572147484147785,0.565318781032302,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.29298744963777,0.166976485593938,0,0,0,0,0,0,0,0,0,0,0,0.215543090236368,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.318139865144421,0.308536555987253,0.268893315244868,0.275703118355611,0.316015011629808,0.448712382462784,0.115432414129512,0,0,0,0,0,0.0254340553719351,0,0,0,0.284910225716314,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194445471641185,0.164449590503707,0.517404685814234,0.434334421267153,0.374778587894724,0.244374584202533,0.371076178555103,0.371245906776716,0.62034397318922,0.407098602473158,0.309177216741313,0.341844807303808,0.341461281889102,0.237875402198471,0.211878289366281,0,0.221867905942098,0.26105822122963,0.120876255993453,0.0978461107777356,0,0.244154700692047,0.265471974098906,0.179609583883942,0.146762969796454,0.169172763866184,0.165403796547116,0,0.14986111676545,0.201068050435521,0.128033729919821,0.314889525375005,0.234342257396434,0.199037798091534,0.243750957776796,0.202025510213218,0.238475639215048,0.252661106676919,0.148421355017489,0.193442483447008,0.202263507572545,0.112441925220423,0.259704250749409,0.165781451382873,0.0766064454112358,0.175981558593572,0.166685587652774,0,0,0,0
|coexpression_dpi_cluster_scores_median=0.930796049779409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.153880826611225,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.755444009801006,0.218555320865808,1.17782254070292,1.04572792611609,0.727507022082138,0.72530523208327,0,0,0,0,0,0,0.559920262766389,0.71866174498074,0,0.30460546191316,0.658696105011154,0,0,0,0.490969359070988,0.64913662990114,0.15068229631276,0.257687123905543,0.152487072037699,0.330941898710929,0.366462414722097,0,0,0,0,0.179192416738202,0.164596587144155,0.619643252789235,0.915269149618372,0.408704566468946,0.325665874540913,0.193893011938994,0.475144664304753,0.562490009537864,0.496317222511774,0.55745814449709,0.0317017435824471,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.107781924973909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.681797353649799,0.570870543844938,0,0,0,0,0.161179842546876,0.451786805560604,0.176848416016191,0.378505927175087,0.305966219492192,0.0819907263755358,0.257967923814717,0,0,0,0.0829439327499637,0.143127679930209,0,0.187573281223881,0,0.148670198047907,0.333048766605744,0.265599679938124,0,0.21661553485341,0.0752205997629372,0.130945290313773,0.0860734338295156,0.192035967274322,0,0,0,0,0,0,0,0,0,0,0,0.0623063220167371,0,0,0,0,0,0,0,0,0,0.572147484147785,0.565318781032302,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.29298744963777,0.166976485593938,0,0,0,0,0,0,0,0,0,0,0,0.215543090236368,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.318139865144421,0.308536555987253,0.268893315244868,0.275703118355611,0.316015011629808,0.448712382462784,0.115432414129512,0,0,0,0,0,0.0254340553719351,0,0,0,0.284910225716314,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194445471641185,0.164449590503707,0.517404685814234,0.434334421267153,0.374778587894724,0.244374584202533,0.371076178555103,0.371245906776716,0.62034397318922,0.407098602473158,0.309177216741313,0.341844807303808,0.341461281889102,0.237875402198471,0.211878289366281,0,0.221867905942098,0.26105822122963,0.120876255993453,0.0978461107777356,0,0.244154700692047,0.265471974098906,0.179609583883942,0.146762969796454,0.169172763866184,0.165403796547116,0,0.14986111676545,0.201068050435521,0.128033729919821,0.314889525375005,0.234342257396434,0.199037798091534,0.243750957776796,0.202025510213218,0.238475639215048,0.252661106676919,0.148421355017489,0.193442483447008,0.202263507572545,0.112441925220423,0.259704250749409,0.165781451382873,0.0766064454112358,0.175981558593572,0.166685587652774,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!1.52e-11!44;CL:0000133!1.52e-11!44;CL:0002319!2.97e-11!43;CL:0000117!1.33e-09!23;CL:0000337!1.33e-09!23;CL:0002453!5.57e-09!8;CL:0000055!1.01e-08!49;CL:0000333!8.92e-08!10;CL:0000095!8.92e-08!10;CL:0000243!8.92e-08!10;CL:0000123!8.92e-08!10;CL:0000125!8.92e-08!10;CL:0000030!8.92e-08!10;CL:0000339!8.92e-08!10;CL:0000128!3.72e-07!6;CL:0000126!3.72e-07!6;CL:0000127!3.72e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!1.03e-32!52;UBERON:0005068!1.03e-32!52;UBERON:0006241!1.03e-32!52;UBERON:0007135!1.03e-32!52;UBERON:0001017!1.81e-32!73;UBERON:0001016!4.81e-32!75;UBERON:0000073!6.22e-32!54;UBERON:0002346!1.18e-30!64;UBERON:0003075!1.18e-30!64;UBERON:0007284!1.18e-30!64;UBERON:0004121!1.20e-28!95;UBERON:0000924!1.20e-28!95;UBERON:0006601!1.20e-28!95;UBERON:0010371!5.03e-28!73;UBERON:0000955!7.10e-28!47;UBERON:0006238!7.10e-28!47;UBERON:0002616!2.72e-27!46;UBERON:0003056!6.62e-23!49;UBERON:0003080!1.84e-22!40;UBERON:0002780!4.46e-22!39;UBERON:0001890!4.46e-22!39;UBERON:0006240!4.46e-22!39;UBERON:0002020!9.82e-22!34;UBERON:0010314!3.62e-18!92;UBERON:0003528!2.11e-17!29;UBERON:0002791!2.11e-17!29;UBERON:0001893!2.11e-17!29;UBERON:0000956!2.23e-11!21;UBERON:0001869!2.23e-11!21;UBERON:0000203!2.23e-11!21;UBERON:0003076!1.27e-10!12;UBERON:0003057!1.27e-10!12;UBERON:0002619!2.24e-09!17;UBERON:0002021!1.65e-08!10;UBERON:0000411!1.65e-08!10;UBERON:0001950!1.65e-08!10;UBERON:0002420!2.03e-07!8;UBERON:0007245!2.03e-07!8;UBERON:0010009!2.03e-07!8;UBERON:0010011!2.03e-07!8;UBERON:0000454!2.03e-07!8
}}
}}

Revision as of 19:11, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:122850331..122850343,-p3@Gm5089
Mm9::chr14:122850352..122850372,-p2@Gm5089
Mm9::chr14:122850378..122850408,-p1@Gm5089


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

no results for this coexpression

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
neural tube1.03e-3252
neural rod1.03e-3252
future spinal cord1.03e-3252
neural keel1.03e-3252
central nervous system1.81e-3273
nervous system4.81e-3275
regional part of nervous system6.22e-3254
neurectoderm1.18e-3064
neural plate1.18e-3064
presumptive neural plate1.18e-3064
ectoderm-derived structure1.20e-2895
ectoderm1.20e-2895
presumptive ectoderm1.20e-2895
ecto-epithelium5.03e-2873
brain7.10e-2847
future brain7.10e-2847
regional part of brain2.72e-2746
pre-chordal neural plate6.62e-2349
anterior neural tube1.84e-2240
regional part of forebrain4.46e-2239
forebrain4.46e-2239
future forebrain4.46e-2239
gray matter9.82e-2234
structure with developmental contribution from neural crest3.62e-1892
brain grey matter2.11e-1729
regional part of telencephalon2.11e-1729
telencephalon2.11e-1729
cerebral cortex2.23e-1121
cerebral hemisphere2.23e-1121
pallium2.23e-1121
posterior neural tube1.27e-1012
chordal neural plate1.27e-1012
regional part of cerebral cortex2.24e-0917
occipital lobe1.65e-0810
visual cortex1.65e-0810
neocortex1.65e-0810
basal ganglion2.03e-078
nuclear complex of neuraxis2.03e-078
aggregate regional part of brain2.03e-078
collection of basal ganglia2.03e-078
cerebral subcortex2.03e-078


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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