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MCL coexpression mm9:1559: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003056!1.95e-25!49;UBERON:0002780!7.98e-18!39;UBERON:0001890!7.98e-18!39;UBERON:0006240!7.98e-18!39;UBERON:0003080!4.41e-17!40;UBERON:0002346!4.54e-17!64;UBERON:0003075!4.54e-17!64;UBERON:0007284!4.54e-17!64;UBERON:0003528!1.53e-16!29;UBERON:0002791!1.53e-16!29;UBERON:0001893!1.53e-16!29;UBERON:0004121!1.30e-15!95;UBERON:0000924!1.30e-15!95;UBERON:0006601!1.30e-15!95;UBERON:0002616!1.24e-14!46;UBERON:0010371!2.03e-14!73;UBERON:0000956!2.19e-14!21;UBERON:0001869!2.19e-14!21;UBERON:0000203!2.19e-14!21;UBERON:0000955!4.53e-14!47;UBERON:0006238!4.53e-14!47;UBERON:0002020!1.01e-12!34;UBERON:0000073!2.27e-12!54;UBERON:0001017!7.89e-12!73;UBERON:0001049!1.29e-11!52;UBERON:0005068!1.29e-11!52;UBERON:0006241!1.29e-11!52;UBERON:0007135!1.29e-11!52;UBERON:0002619!2.70e-11!17;UBERON:0001016!3.78e-11!75;UBERON:0000970!7.33e-10!9;UBERON:0000019!7.33e-10!9;UBERON:0000047!7.33e-10!9;UBERON:0010312!7.33e-10!9;UBERON:0004088!7.33e-10!9;UBERON:0002104!7.33e-10!9;UBERON:0001456!7.33e-10!9;UBERON:0003072!7.33e-10!9;UBERON:0004128!7.33e-10!9;UBERON:0003071!7.33e-10!9;UBERON:0000020!2.78e-09!12;UBERON:0001032!2.78e-09!12;UBERON:0004456!2.78e-09!12;UBERON:0001444!3.32e-09!11;UBERON:0010314!1.03e-08!92;UBERON:0000033!2.81e-08!13;UBERON:0005085!8.58e-07!13;UBERON:0001954!9.67e-07!7;UBERON:0003022!9.67e-07!7;UBERON:0002421!9.67e-07!7;UBERON:0000349!9.67e-07!7;UBERON:0002600!9.67e-07!7
|ontology_enrichment_uberon=UBERON:0003056!1.95e-25!49;UBERON:0002780!7.98e-18!39;UBERON:0001890!7.98e-18!39;UBERON:0006240!7.98e-18!39;UBERON:0003080!4.41e-17!40;UBERON:0002346!4.54e-17!64;UBERON:0003075!4.54e-17!64;UBERON:0007284!4.54e-17!64;UBERON:0003528!1.53e-16!29;UBERON:0002791!1.53e-16!29;UBERON:0001893!1.53e-16!29;UBERON:0004121!1.30e-15!95;UBERON:0000924!1.30e-15!95;UBERON:0006601!1.30e-15!95;UBERON:0002616!1.24e-14!46;UBERON:0010371!2.03e-14!73;UBERON:0000956!2.19e-14!21;UBERON:0001869!2.19e-14!21;UBERON:0000203!2.19e-14!21;UBERON:0000955!4.53e-14!47;UBERON:0006238!4.53e-14!47;UBERON:0002020!1.01e-12!34;UBERON:0000073!2.27e-12!54;UBERON:0001017!7.89e-12!73;UBERON:0001049!1.29e-11!52;UBERON:0005068!1.29e-11!52;UBERON:0006241!1.29e-11!52;UBERON:0007135!1.29e-11!52;UBERON:0002619!2.70e-11!17;UBERON:0001016!3.78e-11!75;UBERON:0000970!7.33e-10!9;UBERON:0000019!7.33e-10!9;UBERON:0000047!7.33e-10!9;UBERON:0010312!7.33e-10!9;UBERON:0004088!7.33e-10!9;UBERON:0002104!7.33e-10!9;UBERON:0001456!7.33e-10!9;UBERON:0003072!7.33e-10!9;UBERON:0004128!7.33e-10!9;UBERON:0003071!7.33e-10!9;UBERON:0000020!2.78e-09!12;UBERON:0001032!2.78e-09!12;UBERON:0004456!2.78e-09!12;UBERON:0001444!3.32e-09!11;UBERON:0010314!1.03e-08!92;UBERON:0000033!2.81e-08!13;UBERON:0005085!8.58e-07!13;UBERON:0001954!9.67e-07!7;UBERON:0003022!9.67e-07!7;UBERON:0002421!9.67e-07!7;UBERON:0000349!9.67e-07!7;UBERON:0002600!9.67e-07!7
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.310789,0.115752,0.668936,0.702872,0.812978,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.545768,0.489529,0.874994,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.645258,0.626183,1.03545,0.395107,0.253145,0.425309,0.454919,0.384813,0.699032,0.947152,0.876199,0.401916,0.631725,0.830062,1.09239,0.0637209,0.591277,0.847828,0.658142,0.746467,0.459555,0.912738,0.786094,0.627649,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,0.152094,1.23259,0.257421,0.245132,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,3.97808,0.297068,1.20595,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,0.590368,1.7727,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,1.93643,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.997706,0.701187,0.425122
}}
}}

Revision as of 20:05, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:21897045..21897093,-p@chr11:21897045..21897093
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Mm9::chr11:21901587..21901604,-p2@Otx1
Mm9::chr11:21901608..21901634,-p1@Otx1
Mm9::chr11:21901846..21901849,+p@chr11:21901846..21901849
+
Mm9::chr11:21907435..21907455,-p@chr11:21907435..21907455
-


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>


Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)1.69e-0723
neuroblast (sensu Vertebrata)1.69e-0723

Uber Anatomy
Ontology termp-valuen
pre-chordal neural plate1.95e-2549
regional part of forebrain7.98e-1839
forebrain7.98e-1839
future forebrain7.98e-1839
anterior neural tube4.41e-1740
neurectoderm4.54e-1764
neural plate4.54e-1764
presumptive neural plate4.54e-1764
brain grey matter1.53e-1629
regional part of telencephalon1.53e-1629
telencephalon1.53e-1629
ectoderm-derived structure1.30e-1595
ectoderm1.30e-1595
presumptive ectoderm1.30e-1595
regional part of brain1.24e-1446
ecto-epithelium2.03e-1473
cerebral cortex2.19e-1421
cerebral hemisphere2.19e-1421
pallium2.19e-1421
brain4.53e-1447
future brain4.53e-1447
gray matter1.01e-1234
regional part of nervous system2.27e-1254
central nervous system7.89e-1273
neural tube1.29e-1152
neural rod1.29e-1152
future spinal cord1.29e-1152
neural keel1.29e-1152
regional part of cerebral cortex2.70e-1117
nervous system3.78e-1175
eye7.33e-109
camera-type eye7.33e-109
simple eye7.33e-109
immature eye7.33e-109
ocular region7.33e-109
visual system7.33e-109
face7.33e-109
optic cup7.33e-109
optic vesicle7.33e-109
eye primordium7.33e-109
sense organ2.78e-0912
sensory system2.78e-0912
entire sense organ system2.78e-0912
subdivision of head3.32e-0911
structure with developmental contribution from neural crest1.03e-0892
head2.81e-0813
ectodermal placode8.58e-0713
Ammon's horn9.67e-077
lobe parts of cerebral cortex9.67e-077
hippocampal formation9.67e-077
limbic system9.67e-077
limbic lobe9.67e-077


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}}}