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MCL coexpression mm9:1375: Difference between revisions

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{{MCL_coexpression_mm9
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metabolic process;4.52099326239946e-06;15486,15360,20887,170460!GO:0006694;steroid biosynthetic process;4.71792564992609e-05;15486,15360,170460!GO:0044255;cellular lipid metabolic process;0.000256852910400137;15486,15360,20887,170460!GO:0006629;lipid metabolic process;0.000335389894977196;15486,15360,20887,170460!GO:0008610;lipid biosynthetic process;0.000763104595152154;15486,15360,170460!GO:0016782;transferase activity, transferring sulfur-containing groups;0.00174788185367212;246221,20887!GO:0016784;3-mercaptopyruvate sulfurtransferase activity;0.00432022915998153;246221!GO:0004779;sulfate adenylyltransferase activity;0.00503957698138634;23972!GO:0017067;tyrosine-ester sulfotransferase activity;0.00503957698138634;20887!GO:0004781;sulfate adenylyltransferase (ATP) activity;0.00503957698138634;23972!GO:0004421;hydroxymethylglutaryl-CoA synthase activity;0.00503957698138634;15360!GO:0004020;adenylylsulfate kinase activity;0.00503957698138634;23972!GO:0050327;testosterone 17-beta-dehydrogenase activity;0.00668680369197086;15486!GO:0016740;transferase activity;0.00668680369197086;15360,246221,20887,23972!GO:0004062;aryl sulfotransferase activity;0.00671759538684697;20887!GO:0006791;sulfur utilization;0.00671759538684697;23972!GO:0004792;thiosulfate sulfurtransferase activity;0.00671759538684697;246221!GO:0000103;sulfate assimilation;0.00671759538684697;23972!GO:0016783;sulfurtransferase activity;0.00755625970617706;246221!GO:0046912;transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer;0.00755625970617706;15360!GO:0005743;mitochondrial inner membrane;0.00906493270344742;15360,246221!GO:0017127;cholesterol transporter activity;0.00906493270344742;170460!GO:0015248;sterol transporter activity;0.00906493270344742;170460!GO:0019866;organelle inner membrane;0.00906493270344742;15360,246221!GO:0004303;estradiol 17-beta-dehydrogenase activity;0.00906493270344742;15486!GO:0015485;cholesterol binding;0.00906493270344742;170460!GO:0031966;mitochondrial membrane;0.00906493270344742;15360,246221!GO:0005740;mitochondrial envelope;0.0101810170544678;15360,246221!GO:0008272;sulfate transport;0.0124949266956514;246221!GO:0009058;biosynthetic process;0.012702024894884;15486,15360,170460!GO:0044429;mitochondrial part;0.012702024894884;15360,246221!GO:0032934;sterol binding;0.0132071635044364;170460!GO:0008299;isoprenoid biosynthetic process;0.0155449035455494;15360!GO:0031975;envelope;0.0157144263002789;15360,246221!GO:0031967;organelle envelope;0.0157144263002789;15360,246221!GO:0016229;steroid dehydrogenase activity;0.0175926767312476;15486!GO:0006695;cholesterol biosynthetic process;0.0179298479355187;15360!GO:0006720;isoprenoid metabolic process;0.0224012732010386;15360!GO:0016126;sterol biosynthetic process;0.0224012732010386;15360!GO:0031090;organelle membrane;0.0260908927637333;15360,246221!GO:0008146;sulfotransferase activity;0.0322638411090593;20887!GO:0005319;lipid 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|ontology_enrichment_celltype=
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|ontology_enrichment_uberon=UBERON:0009854!3.92e-14!23;UBERON:0009856!3.92e-14!23;UBERON:0002107!2.05e-13!22;UBERON:0007499!2.05e-13!22;UBERON:0006925!2.05e-13!22;UBERON:0009497!2.05e-13!22;UBERON:0000015!2.05e-13!22;UBERON:0002423!2.05e-13!22;UBERON:0006235!2.05e-13!22;UBERON:0008835!2.05e-13!22;UBERON:0003894!2.05e-13!22;UBERON:0004161!2.05e-13!22;UBERON:0008836!2.05e-13!22;UBERON:0002365!8.39e-12!25;UBERON:0002330!8.39e-12!25;UBERON:0005172!9.71e-12!49;UBERON:0005173!9.71e-12!49;UBERON:0002417!9.71e-12!49;UBERON:0000916!9.71e-12!49;UBERON:0005256!5.29e-10!45;UBERON:0001007!1.15e-09!116;UBERON:0001555!1.15e-09!116;UBERON:0007026!1.15e-09!116;UBERON:0004119!1.46e-09!118;UBERON:0000925!1.46e-09!118;UBERON:0006595!1.46e-09!118;UBERON:0005409!1.94e-09!47;UBERON:0004921!3.57e-09!114;UBERON:0003104!1.61e-08!61;UBERON:0009142!1.61e-08!61;UBERON:0000160!3.40e-08!31;UBERON:0005177!6.83e-08!79;UBERON:0009569!6.95e-08!66;UBERON:0000468!4.77e-07!333;UBERON:0003914!9.34e-07!47
}}

Latest revision as of 16:50, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:78240169..78240178,+p9@Mpst
Mm9::chr19:32669903..32669938,+p5@Papss2
Mm9::chr3:98084350..98084367,+p1@Hmgcs2
Mm9::chr7:133819942..133819953,-p2@Sult1a1
Mm9::chr7:90780497..90780532,+p1@Stard5
Mm9::chr8:120225837..120225856,+p1@Hsd17b2


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:0008202steroid metabolic process4.52099326239946e-06
GO:0006694steroid biosynthetic process4.71792564992609e-05
GO:0044255cellular lipid metabolic process0.000256852910400137
GO:0006629lipid metabolic process0.000335389894977196
GO:0008610lipid biosynthetic process0.000763104595152154
GO:0016782transferase activity, transferring sulfur-containing groups0.00174788185367212
GO:00167843-mercaptopyruvate sulfurtransferase activity0.00432022915998153
GO:0004779sulfate adenylyltransferase activity0.00503957698138634
GO:0017067tyrosine-ester sulfotransferase activity0.00503957698138634
GO:0004781sulfate adenylyltransferase (ATP) activity0.00503957698138634
GO:0004421hydroxymethylglutaryl-CoA synthase activity0.00503957698138634
GO:0004020adenylylsulfate kinase activity0.00503957698138634
GO:0050327testosterone 17-beta-dehydrogenase activity0.00668680369197086
GO:0016740transferase activity0.00668680369197086
GO:0004062aryl sulfotransferase activity0.00671759538684697
GO:0006791sulfur utilization0.00671759538684697
GO:0004792thiosulfate sulfurtransferase activity0.00671759538684697
GO:0000103sulfate assimilation0.00671759538684697
GO:0016783sulfurtransferase activity0.00755625970617706
GO:0046912transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer0.00755625970617706
GO:0005743mitochondrial inner membrane0.00906493270344742
GO:0017127cholesterol transporter activity0.00906493270344742
GO:0015248sterol transporter activity0.00906493270344742
GO:0019866organelle inner membrane0.00906493270344742
GO:0004303estradiol 17-beta-dehydrogenase activity0.00906493270344742
GO:0015485cholesterol binding0.00906493270344742
GO:0031966mitochondrial membrane0.00906493270344742
GO:0005740mitochondrial envelope0.0101810170544678
GO:0008272sulfate transport0.0124949266956514
GO:0009058biosynthetic process0.012702024894884
GO:0044429mitochondrial part0.012702024894884
GO:0032934sterol binding0.0132071635044364
GO:0008299isoprenoid biosynthetic process0.0155449035455494
GO:0031975envelope0.0157144263002789
GO:0031967organelle envelope0.0157144263002789
GO:0016229steroid dehydrogenase activity0.0175926767312476
GO:0006695cholesterol biosynthetic process0.0179298479355187
GO:0006720isoprenoid metabolic process0.0224012732010386
GO:0016126sterol biosynthetic process0.0224012732010386
GO:0031090organelle membrane0.0260908927637333
GO:0008146sulfotransferase activity0.0322638411090593
GO:0005319lipid transporter activity0.0328471924877397
GO:0005496steroid binding0.0328471924877397
GO:0044237cellular metabolic process0.0397355137963694
GO:0006790sulfur metabolic process0.039997660765998
GO:0008203cholesterol metabolic process0.0417138401059138
GO:0016125sterol metabolic process0.0452483082324079
GO:0006869lipid transport0.0461587442985047



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
digestive tract diverticulum3.92e-1423
sac3.92e-1423
liver2.05e-1322
epithelial sac2.05e-1322
digestive gland2.05e-1322
epithelium of foregut-midgut junction2.05e-1322
anatomical boundary2.05e-1322
hepatobiliary system2.05e-1322
foregut-midgut junction2.05e-1322
hepatic diverticulum2.05e-1322
liver primordium2.05e-1322
septum transversum2.05e-1322
liver bud2.05e-1322
exocrine gland8.39e-1225
exocrine system8.39e-1225
abdomen element9.71e-1249
abdominal segment element9.71e-1249
abdominal segment of trunk9.71e-1249
abdomen9.71e-1249
trunk mesenchyme5.29e-1045
digestive system1.15e-09116
digestive tract1.15e-09116
primitive gut1.15e-09116
endoderm-derived structure1.46e-09118
endoderm1.46e-09118
presumptive endoderm1.46e-09118
gastrointestinal system1.94e-0947
subdivision of digestive tract3.57e-09114
mesenchyme1.61e-0861
entire embryonic mesenchyme1.61e-0861
intestine3.40e-0831
trunk region element6.83e-0879
subdivision of trunk6.95e-0866
multi-cellular organism4.77e-07333
epithelial tube9.34e-0747


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)
MA0003.10.135108
MA0004.10.536396
MA0006.10.359699
MA0007.11.29371
MA0009.10.987341
MA0014.10.0315641
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.370592
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.11.12834
MA0043.11.08567
MA0046.11.02391
MA0048.10.161427
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.212634
MA0056.10
MA0057.10.457693
MA0058.10.436487
MA0059.10.449345
MA0060.10.757042
MA0061.10.307097
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.0477423
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.358337
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.11.25163
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.10.199622
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.11.68825
MA0114.10.822296
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.11.16221
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.10.682297
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.119202
MA0146.10.0392287
MA0147.10.320675
MA0148.11.3627
MA0149.10.464445
MA0062.20.204999
MA0035.20.630778
MA0039.20.328366
MA0138.20.788113
MA0002.20.689262
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.119197
MA0065.20.763394
MA0150.11.29346
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.159217
MA0155.10.132921
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.10.176524
MA0163.10.0423021
MA0164.11.58466
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.20.0121017
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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