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MCL coexpression mm9:294: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009569!1.23e-08!66;UBERON:0002048!3.71e-08!14;UBERON:0000117!3.71e-08!14;UBERON:0000171!3.71e-08!14;UBERON:0000170!3.71e-08!14;UBERON:0005597!3.71e-08!14;UBERON:0000118!3.71e-08!14
|ontology_enrichment_uberon=UBERON:0009569!1.23e-08!66;UBERON:0002048!3.71e-08!14;UBERON:0000117!3.71e-08!14;UBERON:0000171!3.71e-08!14;UBERON:0000170!3.71e-08!14;UBERON:0005597!3.71e-08!14;UBERON:0000118!3.71e-08!14
|tfbs_overrepresentation_for_novel_motifs=0.266398,0.132787,0.0658715,0.321531,0.514709,0.341268,0.156184,1.73745,0.140055,0.153187,0.407767,0.14888,0.0458222,0.163767,0.891169,0,0.298759,0.0255171,0.10903,0.267797,0.051421,0.389275,0.49061,2.08675,0.521552,0.181283,0.0993251,0.370572,0.363703,0.13193,0.350793,0.987057,0.259177,0.508566,0.0322491,0.855826,0.0983807,0.146713,0.399193,0.547658,0.503057,0.11102,0.12636,0.569818,0.107155,0.306585,0.673722,1.2796,0.704379,0.369578,0.285502,0.199013,0.820548,0.498054,0.513233,0.168251,0.171288,0.435923,0.554451,0.166967,0.362491,0.592731,0.531917,0.277045,0.175326,0.307787,0.634702,0.961967,0.358731,0.821947,0.0582314,0.476705,0.0149026,0.542659,0.00481868,0.294934,0.173584,0.2317,0.920839,0.434586,0.280111,0.312115,0.204396,0.0081512,0.442898,0.00443853,0.00184039,0.132169,0.243285,1.11866,0.698467,0.447112,0.389188,0.531976,0.0781271,0.574151,0.691289,0.391493,0.239959,0.505942,1.49089,0.378494,0.482983,0.285951,0.285156,0.110785,0.331187,0.775412,0.0548223,0.429471,0.257525,0.484521,0.764025,0.133166,0.704965,0.497898,0.0576282,0.326633,0.299754,0.095335,0.547427,0.724052,0.182466,0.65337,0.755173,0.35168,0.161211,0.38364,0.633325,0.858725,0.468394,0.0936722,0.606596,1.00646,0.72494,0.0346041,0.0810586,0.111771,1.62757,1.47999,1.08773,0.638981,1.6721,0.387274,0.280284,0.358643,0.678914,1.44084,0.082151,0.116723,0.13621,0.0639904,0.499416,0.069779,0.522826,0.571287,0.199688,0.941747,0.557767,0.0809296,0.688329,0.442174,0.928175,0.0730739,0.277809,0.171615,0.738351,0.147927,0.166102
}}
}}

Revision as of 18:07, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:57814850..57814868,+p9@Lims1
Mm9::chr11:102028513..102028537,-p@chr11:102028513..102028537
-
Mm9::chr11:70452620..70452677,+p1@Gp1ba
Mm9::chr11:70453863..70453874,+p@chr11:70453863..70453874
+
Mm9::chr13:60841293..60841307,+p@chr13:60841293..60841307
+
Mm9::chr13:96466806..96466824,+p3@F2rl2
Mm9::chr13:96466850..96466876,+p2@F2rl2
Mm9::chr13:96466887..96466934,+p1@F2rl2
Mm9::chr15:84087557..84087581,+p3@Parvb
Mm9::chr15:84087591..84087602,+p4@Parvb
Mm9::chr16:18621697..18621708,-p2@Gp1bb
Mm9::chr16:18621715..18621730,-p4@Gp1bb
Mm9::chr16:18621732..18621762,-p1@Gp1bb
Mm9::chr16:34040370..34040382,-p@chr16:34040370..34040382
-
Mm9::chr17:35203116..35203134,-p1@AU023871
Mm9::chr17:35203139..35203150,-p2@AU023871
Mm9::chr17:35222554..35222560,-p1@Ly6g6f
Mm9::chr17:48499216..48499251,+p1@Treml1
Mm9::chr18:89346357..89346381,+p2@Cd226
Mm9::chr2:174276179..174276209,+p1@Tubb1
Mm9::chr4:155628818..155628829,-p@chr4:155628818..155628829
-
Mm9::chr4:43571009..43571021,-p@chr4:43571009..43571021
-
Mm9::chr5:149740396..149740401,-p7@Katnal1
Mm9::chr6:87728058..87728076,+p2@Gp9
Mm9::chr6:87728078..87728106,+p1@Gp9
Mm9::chr7:118070193..118070219,-p5@Mrvi1
Mm9::chr7:4349307..4349330,-p1@Gp6
Mm9::chrX:131118106..131118120,-p4@Btk


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:0007596blood coagulation0.000340458915674949
GO:0007599hemostasis0.000340458915674949
GO:0050817coagulation0.000340458915674949
GO:0050878regulation of body fluid levels0.000559822179556468
GO:0042060wound healing0.00064459655927215
GO:0022610biological adhesion0.000753716298755037
GO:0007155cell adhesion0.000753716298755037
GO:0009611response to wounding0.0184153247875671
GO:0008568microtubule-severing ATPase activity0.023574368266565
GO:0044425membrane part0.0265953009987638
GO:0044459plasma membrane part0.0329559532940279
GO:0016020membrane0.0331299589695205
GO:0009605response to external stimulus0.0376011125980134
GO:0051225spindle assembly0.045405110629882
GO:0005518collagen binding0.0494248735724735



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
subdivision of trunk1.23e-0866
lung3.71e-0814
respiratory tube3.71e-0814
respiration organ3.71e-0814
pair of lungs3.71e-0814
lung primordium3.71e-0814
lung bud3.71e-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}}}

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