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MCL coexpression mm9:1519: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007100!2.35e-09!18;UBERON:0000948!2.35e-09!18;UBERON:0005498!2.35e-09!18;UBERON:0004140!2.35e-09!18;UBERON:0009881!2.35e-09!18;UBERON:0004141!2.35e-09!18;UBERON:0003084!2.35e-09!18;UBERON:0007005!2.35e-09!18;UBERON:0004139!2.35e-09!18;UBERON:0004291!2.35e-09!18;UBERON:0000468!3.53e-09!333;UBERON:0002048!1.00e-08!14;UBERON:0000117!1.00e-08!14;UBERON:0000171!1.00e-08!14;UBERON:0000170!1.00e-08!14;UBERON:0005597!1.00e-08!14;UBERON:0000118!1.00e-08!14
|ontology_enrichment_uberon=UBERON:0007100!2.35e-09!18;UBERON:0000948!2.35e-09!18;UBERON:0005498!2.35e-09!18;UBERON:0004140!2.35e-09!18;UBERON:0009881!2.35e-09!18;UBERON:0004141!2.35e-09!18;UBERON:0003084!2.35e-09!18;UBERON:0007005!2.35e-09!18;UBERON:0004139!2.35e-09!18;UBERON:0004291!2.35e-09!18;UBERON:0000468!3.53e-09!333;UBERON:0002048!1.00e-08!14;UBERON:0000117!1.00e-08!14;UBERON:0000171!1.00e-08!14;UBERON:0000170!1.00e-08!14;UBERON:0005597!1.00e-08!14;UBERON:0000118!1.00e-08!14
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.087078,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.310789,0.746305,0.668936,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,0.545768,0.489529,0.44579,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.645258,0.626183,1.03545,1.02297,0.704734,0.425309,0.20704,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.0637209,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,0.627649,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,1.26875,0.30684,0.152094,1.23259,0.714607,0.245132,1.30151,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,0.272382,0.0882907,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,1.03353,0.328405,0.607321,0.932233,0.380707,1.23809,2.03938,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,1.39694,0.408309,0.651755,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,2.81171,0.0513167
}}
}}

Revision as of 20:02, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:57857109..57857128,+p2@Lims1
Mm9::chr10:57857129..57857143,+p5@Lims1
Mm9::chr10:6979950..6980034,-p1@Ppp1r14c
Mm9::chr10:87842901..87842925,-p@chr10:87842901..87842925
-
Mm9::chr5:98459746..98459784,-p7@Antxr2


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:0004865type 1 serine/threonine specific protein phosphatase inhibitor activity0.0318987207226612
GO:0004864protein phosphatase inhibitor activity0.0318987207226612
GO:0019212phosphatase inhibitor activity0.0318987207226612
GO:0007163establishment and/or maintenance of cell polarity0.0318987207226612
GO:0005925focal adhesion0.0318987207226612
GO:0005924cell-substrate adherens junction0.0318987207226612
GO:0019888protein phosphatase regulator activity0.0318987207226612
GO:0030055cell-matrix junction0.0318987207226612
GO:0019208phosphatase regulator activity0.0318987207226612
GO:0005912adherens junction0.0440827641309891
GO:0007160cell-matrix adhesion0.0440827641309891
GO:0031589cell-substrate adhesion0.0440827641309891
GO:0016323basolateral plasma membrane0.0440827641309891



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
primary circulatory organ2.35e-0918
heart2.35e-0918
primitive heart tube2.35e-0918
primary heart field2.35e-0918
anterior lateral plate mesoderm2.35e-0918
heart tube2.35e-0918
heart primordium2.35e-0918
cardiac mesoderm2.35e-0918
cardiogenic plate2.35e-0918
heart rudiment2.35e-0918
multi-cellular organism3.53e-09333
lung1.00e-0814
respiratory tube1.00e-0814
respiration organ1.00e-0814
pair of lungs1.00e-0814
lung primordium1.00e-0814
lung bud1.00e-0814


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}}}