Personal tools

MCL coexpression mm9:941: 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:0002346!2.59e-32!64;UBERON:0003075!2.59e-32!64;UBERON:0007284!2.59e-32!64;UBERON:0000073!2.26e-30!54;UBERON:0001049!6.87e-30!52;UBERON:0005068!6.87e-30!52;UBERON:0006241!6.87e-30!52;UBERON:0007135!6.87e-30!52;UBERON:0002020!5.45e-28!34;UBERON:0001017!7.19e-27!73;UBERON:0010371!1.52e-26!73;UBERON:0001016!9.08e-26!75;UBERON:0004121!2.86e-25!95;UBERON:0000924!2.86e-25!95;UBERON:0006601!2.86e-25!95;UBERON:0003056!5.10e-25!49;UBERON:0002616!5.62e-23!46;UBERON:0000955!2.94e-22!47;UBERON:0006238!2.94e-22!47;UBERON:0003528!4.82e-22!29;UBERON:0002791!4.82e-22!29;UBERON:0001893!4.82e-22!29;UBERON:0003080!1.18e-20!40;UBERON:0010314!3.33e-20!92;UBERON:0002780!1.00e-19!39;UBERON:0001890!1.00e-19!39;UBERON:0006240!1.00e-19!39;UBERON:0000956!1.17e-14!21;UBERON:0001869!1.17e-14!21;UBERON:0000203!1.17e-14!21;UBERON:0002619!2.45e-10!17;UBERON:0003076!1.04e-09!12;UBERON:0003057!1.04e-09!12;UBERON:0002021!2.07e-09!10;UBERON:0000411!2.07e-09!10;UBERON:0001950!2.07e-09!10;UBERON:0002420!1.21e-08!8;UBERON:0007245!1.21e-08!8;UBERON:0010009!1.21e-08!8;UBERON:0010011!1.21e-08!8;UBERON:0000454!1.21e-08!8;UBERON:0002240!1.78e-08!6;UBERON:0005174!1.78e-08!6;UBERON:0001137!1.78e-08!6;UBERON:0001948!2.89e-07!5;UBERON:0002315!2.89e-07!5;UBERON:0000025!2.97e-07!114
|ontology_enrichment_uberon=UBERON:0002346!2.59e-32!64;UBERON:0003075!2.59e-32!64;UBERON:0007284!2.59e-32!64;UBERON:0000073!2.26e-30!54;UBERON:0001049!6.87e-30!52;UBERON:0005068!6.87e-30!52;UBERON:0006241!6.87e-30!52;UBERON:0007135!6.87e-30!52;UBERON:0002020!5.45e-28!34;UBERON:0001017!7.19e-27!73;UBERON:0010371!1.52e-26!73;UBERON:0001016!9.08e-26!75;UBERON:0004121!2.86e-25!95;UBERON:0000924!2.86e-25!95;UBERON:0006601!2.86e-25!95;UBERON:0003056!5.10e-25!49;UBERON:0002616!5.62e-23!46;UBERON:0000955!2.94e-22!47;UBERON:0006238!2.94e-22!47;UBERON:0003528!4.82e-22!29;UBERON:0002791!4.82e-22!29;UBERON:0001893!4.82e-22!29;UBERON:0003080!1.18e-20!40;UBERON:0010314!3.33e-20!92;UBERON:0002780!1.00e-19!39;UBERON:0001890!1.00e-19!39;UBERON:0006240!1.00e-19!39;UBERON:0000956!1.17e-14!21;UBERON:0001869!1.17e-14!21;UBERON:0000203!1.17e-14!21;UBERON:0002619!2.45e-10!17;UBERON:0003076!1.04e-09!12;UBERON:0003057!1.04e-09!12;UBERON:0002021!2.07e-09!10;UBERON:0000411!2.07e-09!10;UBERON:0001950!2.07e-09!10;UBERON:0002420!1.21e-08!8;UBERON:0007245!1.21e-08!8;UBERON:0010009!1.21e-08!8;UBERON:0010011!1.21e-08!8;UBERON:0000454!1.21e-08!8;UBERON:0002240!1.78e-08!6;UBERON:0005174!1.78e-08!6;UBERON:0001137!1.78e-08!6;UBERON:0001948!2.89e-07!5;UBERON:0002315!2.89e-07!5;UBERON:0000025!2.97e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.121181,0.367606,0.434198,1.32803,0.448401,0.538088,0.173246,0.181564,0.0447303,0.494602,0.526159,0.173454,0.550255,0.275867,0,0.742571,0.252772,0.160384,0.29826,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,0.909128,0.469052,0.303071,0.376624,0.455168,0.843667,0.250677,0.136998,0.276324,2.11044,0.242032,0.522578,0.221921,0.570041,0.256422,0.460258,1.19668,0.761266,0.0183213,0.423266,0.662995,0.484612,1.06276,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,1.0125,0.236196,1.03623,0.140213,0.131016,0.839631,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.025519,0.123242,0.118251,0.667883,1.65055,1.20871,2.13489,0.856465,0.265734,1.16941,0.202284,0.1711,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.903338,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.143112,1.95344,0.743872,0.238599,1.04163,1.65536,0.579418,0.650748,1.26989,0.810177,1.34763,0.849691,1.13749,0.268537,0.950857,1.09252,1.10792,0.570914,1.23736,0.220515,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,1.83663,2.05603,0.120154,0.780212,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.0131724
}}
}}

Revision as of 19:09, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:99670376..99670380,-p@chr12:99670376..99670380
-
Mm9::chr19:47097877..47097890,+p@chr19:47097877..47097890
+
Mm9::chr19:47097990..47098003,+p@chr19:47097990..47098003
+
Mm9::chr19:47098035..47098046,+p@chr19:47098035..47098046
+
Mm9::chr19:47098061..47098072,+p@chr19:47098061..47098072
+
Mm9::chr19:47098327..47098338,+p@chr19:47098327..47098338
+
Mm9::chr19:47099141..47099153,+p@chr19:47099141..47099153
+
Mm9::chr7:17200127..17200137,-p11@Grlf1


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
neurectoderm2.59e-3264
neural plate2.59e-3264
presumptive neural plate2.59e-3264
regional part of nervous system2.26e-3054
neural tube6.87e-3052
neural rod6.87e-3052
future spinal cord6.87e-3052
neural keel6.87e-3052
gray matter5.45e-2834
central nervous system7.19e-2773
ecto-epithelium1.52e-2673
nervous system9.08e-2675
ectoderm-derived structure2.86e-2595
ectoderm2.86e-2595
presumptive ectoderm2.86e-2595
pre-chordal neural plate5.10e-2549
regional part of brain5.62e-2346
brain2.94e-2247
future brain2.94e-2247
brain grey matter4.82e-2229
regional part of telencephalon4.82e-2229
telencephalon4.82e-2229
anterior neural tube1.18e-2040
structure with developmental contribution from neural crest3.33e-2092
regional part of forebrain1.00e-1939
forebrain1.00e-1939
future forebrain1.00e-1939
cerebral cortex1.17e-1421
cerebral hemisphere1.17e-1421
pallium1.17e-1421
regional part of cerebral cortex2.45e-1017
posterior neural tube1.04e-0912
chordal neural plate1.04e-0912
occipital lobe2.07e-0910
visual cortex2.07e-0910
neocortex2.07e-0910
basal ganglion1.21e-088
nuclear complex of neuraxis1.21e-088
aggregate regional part of brain1.21e-088
collection of basal ganglia1.21e-088
cerebral subcortex1.21e-088
spinal cord1.78e-086
dorsal region element1.78e-086
dorsum1.78e-086
regional part of spinal cord2.89e-075
gray matter of spinal cord2.89e-075
tube2.97e-07114


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}}}