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MCL coexpression mm9:1179: Difference between revisions

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{{MCL_coexpression_mm9
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transmembrane transporter activity;0.00887525338300554;231583!GO:0019532;oxalate transport;0.00887525338300554;231583!GO:0022804;active transmembrane transporter activity;0.0236459546425523;74104,231583!GO:0015116;sulfate transmembrane transporter activity;0.0236459546425523;231583!GO:0008271;secondary active sulfate transmembrane transporter activity;0.0236459546425523;231583!GO:0005310;dicarboxylic acid transmembrane transporter activity;0.0236459546425523;231583!GO:0006835;dicarboxylic acid transport;0.0236459546425523;231583!GO:0015108;chloride transmembrane transporter activity;0.0236459546425523;231583!GO:0008272;sulfate transport;0.0236459546425523;231583!GO:0042168;heme metabolic process;0.0265885828449495;15199!GO:0033013;tetrapyrrole metabolic process;0.0265885828449495;15199!GO:0006778;porphyrin metabolic process;0.0265885828449495;15199!GO:0015103;inorganic anion transmembrane transporter activity;0.0381471072572395;231583!GO:0042440;pigment metabolic process;0.0392078911027292;15199!GO:0019748;secondary metabolic process;0.0481762380020585;15199!GO:0019867;outer membrane;0.0481762380020585;74104!GO:0022857;transmembrane transporter activity;0.0481762380020585;74104,231583!GO:0046943;carboxylic acid transmembrane transporter activity;0.0481762380020585;231583!GO:0005342;organic acid transmembrane transporter activity;0.0481762380020585;231583!GO:0006821;chloride transport;0.0481762380020585;231583!GO:0046942;carboxylic acid transport;0.0481762380020585;231583!GO:0015849;organic acid transport;0.0481762380020585;231583!GO:0005739;mitochondrion;0.0485537446943331;74104,15199!GO:0046483;heterocycle metabolic 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|gostat_on_MCL_coexpression=GO:0019531;oxalate transmembrane transporter activity;0.00887525338300554;231583!GO:0019532;oxalate transport;0.00887525338300554;231583!GO:0022804;active transmembrane transporter activity;0.0236459546425523;74104,231583!GO:0015116;sulfate transmembrane transporter activity;0.0236459546425523;231583!GO:0008271;secondary active sulfate transmembrane transporter activity;0.0236459546425523;231583!GO:0005310;dicarboxylic acid transmembrane transporter activity;0.0236459546425523;231583!GO:0006835;dicarboxylic acid transport;0.0236459546425523;231583!GO:0015108;chloride transmembrane transporter activity;0.0236459546425523;231583!GO:0008272;sulfate transport;0.0236459546425523;231583!GO:0042168;heme metabolic process;0.0265885828449495;15199!GO:0033013;tetrapyrrole metabolic process;0.0265885828449495;15199!GO:0006778;porphyrin metabolic process;0.0265885828449495;15199!GO:0015103;inorganic anion transmembrane transporter activity;0.0381471072572395;231583!GO:0042440;pigment metabolic process;0.0392078911027292;15199!GO:0019748;secondary metabolic process;0.0481762380020585;15199!GO:0019867;outer membrane;0.0481762380020585;74104!GO:0022857;transmembrane transporter activity;0.0481762380020585;74104,231583!GO:0046943;carboxylic acid transmembrane transporter activity;0.0481762380020585;231583!GO:0005342;organic acid transmembrane transporter activity;0.0481762380020585;231583!GO:0006821;chloride transport;0.0481762380020585;231583!GO:0046942;carboxylic acid transport;0.0481762380020585;231583!GO:0015849;organic acid transport;0.0481762380020585;231583!GO:0005739;mitochondrion;0.0485537446943331;74104,15199!GO:0046483;heterocycle metabolic process;0.0485537446943331;15199!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005172!5.90e-19!49;UBERON:0005173!5.90e-19!49;UBERON:0002417!5.90e-19!49;UBERON:0000916!5.90e-19!49;UBERON:0002107!2.57e-15!22;UBERON:0007499!2.57e-15!22;UBERON:0006925!2.57e-15!22;UBERON:0009497!2.57e-15!22;UBERON:0000015!2.57e-15!22;UBERON:0002423!2.57e-15!22;UBERON:0006235!2.57e-15!22;UBERON:0008835!2.57e-15!22;UBERON:0003894!2.57e-15!22;UBERON:0004161!2.57e-15!22;UBERON:0008836!2.57e-15!22;UBERON:0009854!1.23e-14!23;UBERON:0009856!1.23e-14!23;UBERON:0002365!4.34e-14!25;UBERON:0002330!4.34e-14!25;UBERON:0003104!9.52e-12!61;UBERON:0009142!9.52e-12!61;UBERON:0009569!1.56e-10!66;UBERON:0005177!3.94e-10!79;UBERON:0005256!5.74e-09!45;UBERON:0002100!4.41e-08!90
}}

Latest revision as of 16:31, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr1:75176923..75176981,-p1@Abcb6
Mm9::chr3:120965869..120965887,-p1@Tmem56
Mm9::chr5:109104613..109104645,-p3@Slc26a1
Mm9::chr5:109104659..109104671,-p5@Slc26a1
Mm9::chr5:109104677..109104690,-p4@Slc26a1
Mm9::chr6:135118149..135118179,-p1@Hebp1
Mm9::chr6:135118180..135118228,-p2@Hebp1


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:0019531oxalate transmembrane transporter activity0.00887525338300554
GO:0019532oxalate transport0.00887525338300554
GO:0022804active transmembrane transporter activity0.0236459546425523
GO:0015116sulfate transmembrane transporter activity0.0236459546425523
GO:0008271secondary active sulfate transmembrane transporter activity0.0236459546425523
GO:0005310dicarboxylic acid transmembrane transporter activity0.0236459546425523
GO:0006835dicarboxylic acid transport0.0236459546425523
GO:0015108chloride transmembrane transporter activity0.0236459546425523
GO:0008272sulfate transport0.0236459546425523
GO:0042168heme metabolic process0.0265885828449495
GO:0033013tetrapyrrole metabolic process0.0265885828449495
GO:0006778porphyrin metabolic process0.0265885828449495
GO:0015103inorganic anion transmembrane transporter activity0.0381471072572395
GO:0042440pigment metabolic process0.0392078911027292
GO:0019748secondary metabolic process0.0481762380020585
GO:0019867outer membrane0.0481762380020585
GO:0022857transmembrane transporter activity0.0481762380020585
GO:0046943carboxylic acid transmembrane transporter activity0.0481762380020585
GO:0005342organic acid transmembrane transporter activity0.0481762380020585
GO:0006821chloride transport0.0481762380020585
GO:0046942carboxylic acid transport0.0481762380020585
GO:0015849organic acid transport0.0481762380020585
GO:0005739mitochondrion0.0485537446943331
GO:0046483heterocycle metabolic process0.0485537446943331



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
abdomen element5.90e-1949
abdominal segment element5.90e-1949
abdominal segment of trunk5.90e-1949
abdomen5.90e-1949
liver2.57e-1522
epithelial sac2.57e-1522
digestive gland2.57e-1522
epithelium of foregut-midgut junction2.57e-1522
anatomical boundary2.57e-1522
hepatobiliary system2.57e-1522
foregut-midgut junction2.57e-1522
hepatic diverticulum2.57e-1522
liver primordium2.57e-1522
septum transversum2.57e-1522
liver bud2.57e-1522
digestive tract diverticulum1.23e-1423
sac1.23e-1423
exocrine gland4.34e-1425
exocrine system4.34e-1425
mesenchyme9.52e-1261
entire embryonic mesenchyme9.52e-1261
subdivision of trunk1.56e-1066
trunk region element3.94e-1079
trunk mesenchyme5.74e-0945
trunk4.41e-0890


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)
MA0003.10.54119
MA0004.11.20906
MA0006.11.51462
MA0007.10.465969
MA0009.10.92425
MA0014.10.425579
MA0017.10.337808
MA0019.11.753
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.321735
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.10.404721
MA0042.10.391504
MA0043.11.02178
MA0046.10.960497
MA0048.10.128106
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.157978
MA0056.10
MA0057.10.376102
MA0058.11.77195
MA0059.10.397033
MA0060.10.656954
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.121435
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.0890846
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.11.07783
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.11.00582
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.11.58083
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.920496
MA0105.10.162418
MA0106.10.677988
MA0107.10.342432
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.10.311187
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.10.202522
MA0140.11.3943
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.10.262477
MA0145.11.56174
MA0146.12.04073
MA0147.10.753844
MA0148.10.49752
MA0149.11.05888
MA0062.20.167299
MA0035.20.573016
MA0039.20.790799
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.21.17226
MA0047.20.626803
MA0112.21.05549
MA0065.20.0914071
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.126143
MA0155.10.102995
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.11.4173
MA0160.10.50056
MA0161.10
MA0162.11.26636
MA0163.10.0280055
MA0164.10.600609
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.20.323753
MA0102.21.65195
MA0258.10.246285
MA0259.10.729797
MA0442.10
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