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MCL coexpression mm9:1968: Difference between revisions

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{{MCL_coexpression_mm9
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O-acyltransferase activity;0.00562138780611094;68393!GO:0006104;succinyl-CoA metabolic process;0.00562138780611094;171282!GO:0046459;short-chain fatty acid metabolic process;0.00562138780611094;171282!GO:0006651;diacylglycerol biosynthetic process;0.00562138780611094;68393!GO:0003846;2-acylglycerol O-acyltransferase activity;0.00562138780611094;68393!GO:0046460;neutral lipid biosynthetic process;0.00562138780611094;68393!GO:0046463;acylglycerol biosynthetic process;0.00562138780611094;68393!GO:0044255;cellular lipid metabolic process;0.00562138780611094;171282,68393!GO:0046339;diacylglycerol metabolic process;0.00562138780611094;68393!GO:0046504;glycerol ether biosynthetic process;0.00562138780611094;68393!GO:0045017;glycerolipid biosynthetic process;0.00562138780611094;68393!GO:0043648;dicarboxylic acid metabolic process;0.00562138780611094;171282!GO:0006629;lipid metabolic process;0.00562138780611094;171282,68393!GO:0016290;palmitoyl-CoA hydrolase activity;0.00603086878670909;171282!GO:0006637;acyl-CoA metabolic process;0.00603086878670909;171282!GO:0016291;acyl-CoA thioesterase activity;0.00603086878670909;171282!GO:0016411;acylglycerol O-acyltransferase activity;0.00603086878670909;68393!GO:0006100;tricarboxylic acid cycle intermediate metabolic process;0.00657174040685285;171282!GO:0016289;CoA hydrolase activity;0.00664073462887965;171282!GO:0006071;glycerol metabolic process;0.00749096282138268;68393!GO:0019751;polyol metabolic process;0.0075095313391231;68393!GO:0006639;acylglycerol metabolic process;0.00819905965580648;68393!GO:0046486;glycerolipid metabolic process;0.00819905965580648;68393!GO:0006638;neutral lipid metabolic process;0.00819905965580648;68393!GO:0006662;glycerol ether metabolic process;0.00819905965580648;68393!GO:0008374;O-acyltransferase activity;0.00909559239437412;68393!GO:0045454;cell redox homeostasis;0.0122581718694476;68393!GO:0042579;microbody;0.0230862485008273;171282!GO:0005777;peroxisome;0.0230862485008273;171282!GO:0016790;thiolester hydrolase activity;0.0230862485008273;171282!GO:0006732;coenzyme metabolic process;0.0392737580302111;171282!GO:0006631;fatty acid metabolic process;0.0392737580302111;171282!GO:0008415;acyltransferase activity;0.0394928238126641;68393!GO:0016747;transferase activity, transferring groups other than amino-acyl groups;0.0394928238126641;68393!GO:0016746;transferase activity, transferring acyl groups;0.039927238538215;68393!GO:0051186;cofactor metabolic process;0.0407707605133528;171282!GO:0019725;cellular homeostasis;0.0439637461505754;68393!GO:0032787;monocarboxylic acid metabolic process;0.0439637461505754;171282!GO:0008610;lipid biosynthetic process;0.0474319260194453;68393!GO:0044262;cellular carbohydrate metabolic process;0.0481029168663236;171282!GO:0006066;alcohol metabolic process;0.0481029168663236;68393!GO:0044444;cytoplasmic 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|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!8.89e-13!31;UBERON:0002107!6.69e-12!22;UBERON:0007499!6.69e-12!22;UBERON:0006925!6.69e-12!22;UBERON:0009497!6.69e-12!22;UBERON:0000015!6.69e-12!22;UBERON:0002423!6.69e-12!22;UBERON:0006235!6.69e-12!22;UBERON:0008835!6.69e-12!22;UBERON:0003894!6.69e-12!22;UBERON:0004161!6.69e-12!22;UBERON:0008836!6.69e-12!22;UBERON:0009854!1.06e-10!23;UBERON:0009856!1.06e-10!23;UBERON:0002365!3.90e-10!25;UBERON:0002330!3.90e-10!25;UBERON:0005172!1.34e-09!49;UBERON:0005173!1.34e-09!49;UBERON:0002417!1.34e-09!49;UBERON:0000916!1.34e-09!49;UBERON:0000344!2.55e-09!15;UBERON:0005409!4.52e-09!47;UBERON:0004119!1.15e-08!118;UBERON:0000925!1.15e-08!118;UBERON:0006595!1.15e-08!118;UBERON:0001007!2.89e-08!116;UBERON:0001555!2.89e-08!116;UBERON:0007026!2.89e-08!116;UBERON:0001242!3.17e-08!13;UBERON:0000060!3.17e-08!13;UBERON:0001262!3.17e-08!13;UBERON:0004786!3.17e-08!13;UBERON:0003104!3.48e-08!61;UBERON:0009142!3.48e-08!61;UBERON:0005256!1.10e-07!45;UBERON:0004921!1.56e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.128156,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.162942,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,0.570433,0.197567,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.318879,0.503207,0.089443,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.185353,0.504971,0.325217,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.98374,0.205546,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,1.75112,1.04072,0.884013,0.362446,1.20828,0.377699,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,1.05366,0.367176,1.14445,0.938512,0.264911,1.16494,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,1.53136,1.25851,0.576517,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,1.2358,1.23918,0.680176,3.09564,0.839311,1.53196,0.195549,0.650785,1.70963,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,1.16191,0.788782,0.589293
}}

Latest revision as of 17:47, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:49059026..49059041,+p9@Mgat1
Mm9::chr12:85379313..85379329,+p2@Acot4
Mm9::chr18:61878972..61878986,-p@chr18:61878972..61878986
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Mm9::chr7:134985979..134986002,-p@chr7:134985979..134986002
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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:0004144diacylglycerol O-acyltransferase activity0.00562138780611094
GO:0006104succinyl-CoA metabolic process0.00562138780611094
GO:0046459short-chain fatty acid metabolic process0.00562138780611094
GO:0006651diacylglycerol biosynthetic process0.00562138780611094
GO:00038462-acylglycerol O-acyltransferase activity0.00562138780611094
GO:0046460neutral lipid biosynthetic process0.00562138780611094
GO:0046463acylglycerol biosynthetic process0.00562138780611094
GO:0044255cellular lipid metabolic process0.00562138780611094
GO:0046339diacylglycerol metabolic process0.00562138780611094
GO:0046504glycerol ether biosynthetic process0.00562138780611094
GO:0045017glycerolipid biosynthetic process0.00562138780611094
GO:0043648dicarboxylic acid metabolic process0.00562138780611094
GO:0006629lipid metabolic process0.00562138780611094
GO:0016290palmitoyl-CoA hydrolase activity0.00603086878670909
GO:0006637acyl-CoA metabolic process0.00603086878670909
GO:0016291acyl-CoA thioesterase activity0.00603086878670909
GO:0016411acylglycerol O-acyltransferase activity0.00603086878670909
GO:0006100tricarboxylic acid cycle intermediate metabolic process0.00657174040685285
GO:0016289CoA hydrolase activity0.00664073462887965
GO:0006071glycerol metabolic process0.00749096282138268
GO:0019751polyol metabolic process0.0075095313391231
GO:0006639acylglycerol metabolic process0.00819905965580648
GO:0046486glycerolipid metabolic process0.00819905965580648
GO:0006638neutral lipid metabolic process0.00819905965580648
GO:0006662glycerol ether metabolic process0.00819905965580648
GO:0008374O-acyltransferase activity0.00909559239437412
GO:0045454cell redox homeostasis0.0122581718694476
GO:0042579microbody0.0230862485008273
GO:0005777peroxisome0.0230862485008273
GO:0016790thiolester hydrolase activity0.0230862485008273
GO:0006732coenzyme metabolic process0.0392737580302111
GO:0006631fatty acid metabolic process0.0392737580302111
GO:0008415acyltransferase activity0.0394928238126641
GO:0016747transferase activity, transferring groups other than amino-acyl groups0.0394928238126641
GO:0016746transferase activity, transferring acyl groups0.039927238538215
GO:0051186cofactor metabolic process0.0407707605133528
GO:0019725cellular homeostasis0.0439637461505754
GO:0032787monocarboxylic acid metabolic process0.0439637461505754
GO:0008610lipid biosynthetic process0.0474319260194453
GO:0044262cellular carbohydrate metabolic process0.0481029168663236
GO:0006066alcohol metabolic process0.0481029168663236
GO:0044444cytoplasmic part0.0481029168663236



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
intestine8.89e-1331
liver6.69e-1222
epithelial sac6.69e-1222
digestive gland6.69e-1222
epithelium of foregut-midgut junction6.69e-1222
anatomical boundary6.69e-1222
hepatobiliary system6.69e-1222
foregut-midgut junction6.69e-1222
hepatic diverticulum6.69e-1222
liver primordium6.69e-1222
septum transversum6.69e-1222
liver bud6.69e-1222
digestive tract diverticulum1.06e-1023
sac1.06e-1023
exocrine gland3.90e-1025
exocrine system3.90e-1025
abdomen element1.34e-0949
abdominal segment element1.34e-0949
abdominal segment of trunk1.34e-0949
abdomen1.34e-0949
mucosa2.55e-0915
gastrointestinal system4.52e-0947
endoderm-derived structure1.15e-08118
endoderm1.15e-08118
presumptive endoderm1.15e-08118
digestive system2.89e-08116
digestive tract2.89e-08116
primitive gut2.89e-08116
intestinal mucosa3.17e-0813
anatomical wall3.17e-0813
wall of intestine3.17e-0813
gastrointestinal system mucosa3.17e-0813
mesenchyme3.48e-0861
entire embryonic mesenchyme3.48e-0861
trunk mesenchyme1.10e-0745
subdivision of digestive tract1.56e-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)
MA0003.10.0356887
MA0004.11.64673
MA0006.11.24418
MA0007.10.672186
MA0009.11.15569
MA0014.10.0809287
MA0017.12.25393
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.12.90785
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.12.42845
MA0059.12.47352
MA0060.10.403071
MA0061.10.438628
MA0063.10
MA0066.11.94802
MA0067.11.50873
MA0068.10.713436
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.783927
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.12.22418
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.12.89957
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.365453
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.11.11951
MA0145.10.21199
MA0146.10.0944145
MA0147.11.15069
MA0148.11.68395
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.731226
MA0138.20.951653
MA0002.20.368961
MA0137.21.37638
MA0104.21.0034
MA0047.20.845655
MA0112.20.211985
MA0065.21.79447
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.11.1762
MA0160.10.71003
MA0161.10
MA0162.10.346529
MA0163.10.672192
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.612404
MA0102.21.8929
MA0258.10.419871
MA0259.11.12353
MA0442.10
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