Personal tools

MCL coexpression mm9:1941: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!3.45e-31!75;UBERON:0000073!2.30e-30!54;UBERON:0001017!6.86e-30!73;UBERON:0001049!1.04e-27!52;UBERON:0005068!1.04e-27!52;UBERON:0006241!1.04e-27!52;UBERON:0007135!1.04e-27!52;UBERON:0002346!1.74e-26!64;UBERON:0003075!1.74e-26!64;UBERON:0007284!1.74e-26!64;UBERON:0002020!2.41e-26!34;UBERON:0004121!3.54e-24!95;UBERON:0000924!3.54e-24!95;UBERON:0006601!3.54e-24!95;UBERON:0002616!1.83e-21!46;UBERON:0010371!2.59e-21!73;UBERON:0000955!9.44e-21!47;UBERON:0006238!9.44e-21!47;UBERON:0003528!1.09e-20!29;UBERON:0002791!1.09e-20!29;UBERON:0001893!1.09e-20!29;UBERON:0003080!8.74e-19!40;UBERON:0010314!4.32e-18!92;UBERON:0002780!6.47e-18!39;UBERON:0001890!6.47e-18!39;UBERON:0006240!6.47e-18!39;UBERON:0003056!6.90e-17!49;UBERON:0000956!1.38e-16!21;UBERON:0001869!1.38e-16!21;UBERON:0000203!1.38e-16!21;UBERON:0002619!7.40e-13!17;UBERON:0000025!8.10e-10!114;UBERON:0003076!1.47e-09!12;UBERON:0003057!1.47e-09!12;UBERON:0002021!1.42e-08!10;UBERON:0000411!1.42e-08!10;UBERON:0001950!1.42e-08!10;UBERON:0004111!2.75e-08!122;UBERON:0002240!9.55e-08!6;UBERON:0005174!9.55e-08!6;UBERON:0001137!9.55e-08!6;UBERON:0001948!5.20e-07!5;UBERON:0002315!5.20e-07!5
|ontology_enrichment_uberon=UBERON:0001016!3.45e-31!75;UBERON:0000073!2.30e-30!54;UBERON:0001017!6.86e-30!73;UBERON:0001049!1.04e-27!52;UBERON:0005068!1.04e-27!52;UBERON:0006241!1.04e-27!52;UBERON:0007135!1.04e-27!52;UBERON:0002346!1.74e-26!64;UBERON:0003075!1.74e-26!64;UBERON:0007284!1.74e-26!64;UBERON:0002020!2.41e-26!34;UBERON:0004121!3.54e-24!95;UBERON:0000924!3.54e-24!95;UBERON:0006601!3.54e-24!95;UBERON:0002616!1.83e-21!46;UBERON:0010371!2.59e-21!73;UBERON:0000955!9.44e-21!47;UBERON:0006238!9.44e-21!47;UBERON:0003528!1.09e-20!29;UBERON:0002791!1.09e-20!29;UBERON:0001893!1.09e-20!29;UBERON:0003080!8.74e-19!40;UBERON:0010314!4.32e-18!92;UBERON:0002780!6.47e-18!39;UBERON:0001890!6.47e-18!39;UBERON:0006240!6.47e-18!39;UBERON:0003056!6.90e-17!49;UBERON:0000956!1.38e-16!21;UBERON:0001869!1.38e-16!21;UBERON:0000203!1.38e-16!21;UBERON:0002619!7.40e-13!17;UBERON:0000025!8.10e-10!114;UBERON:0003076!1.47e-09!12;UBERON:0003057!1.47e-09!12;UBERON:0002021!1.42e-08!10;UBERON:0000411!1.42e-08!10;UBERON:0001950!1.42e-08!10;UBERON:0004111!2.75e-08!122;UBERON:0002240!9.55e-08!6;UBERON:0005174!9.55e-08!6;UBERON:0001137!9.55e-08!6;UBERON:0001948!5.20e-07!5;UBERON:0002315!5.20e-07!5
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.402508,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.489964,0.755749,0.790506,0.96877,0.81685,0.502646,0,1.02248,1.19379,0.352304,0.683591,0.570433,0.197567,0.815872,0.481455,0.620553,0.846564,0.906602,0.727368,0.535752,0.790816,0.711848,1.12823,0.471365,0.318879,0.503207,0.089443,0.460474,0.786577,1.10929,0.40068,0.478558,0.717547,0.185353,0.504971,0.66772,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.882473,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.98374,0.205546,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,0.377699,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,1.22838,0.430015,0.409166,0.961641,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,1.42067,0.57247,0.633483,1.25851,1.41174,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,2.56847,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.0824127
}}
}}

Revision as of 20:40, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:104171794..104171805,+p@chr11:104171794..104171805
+
Mm9::chr11:104182657..104182673,+p@chr11:104182657..104182673
+
Mm9::chr14:20694506..20694548,-p@chr14:20694506..20694548
-
Mm9::chr3:8545615..8545628,+p@chr3:8545615..8545628
+


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
nervous system3.45e-3175
regional part of nervous system2.30e-3054
central nervous system6.86e-3073
neural tube1.04e-2752
neural rod1.04e-2752
future spinal cord1.04e-2752
neural keel1.04e-2752
neurectoderm1.74e-2664
neural plate1.74e-2664
presumptive neural plate1.74e-2664
gray matter2.41e-2634
ectoderm-derived structure3.54e-2495
ectoderm3.54e-2495
presumptive ectoderm3.54e-2495
regional part of brain1.83e-2146
ecto-epithelium2.59e-2173
brain9.44e-2147
future brain9.44e-2147
brain grey matter1.09e-2029
regional part of telencephalon1.09e-2029
telencephalon1.09e-2029
anterior neural tube8.74e-1940
structure with developmental contribution from neural crest4.32e-1892
regional part of forebrain6.47e-1839
forebrain6.47e-1839
future forebrain6.47e-1839
pre-chordal neural plate6.90e-1749
cerebral cortex1.38e-1621
cerebral hemisphere1.38e-1621
pallium1.38e-1621
regional part of cerebral cortex7.40e-1317
tube8.10e-10114
posterior neural tube1.47e-0912
chordal neural plate1.47e-0912
occipital lobe1.42e-0810
visual cortex1.42e-0810
neocortex1.42e-0810
anatomical conduit2.75e-08122
spinal cord9.55e-086
dorsal region element9.55e-086
dorsum9.55e-086
regional part of spinal cord5.20e-075
gray matter of spinal cord5.20e-075


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}}}