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{{MCL_coexpression_mm9
{
|coexpression_dpi_cluster_scores_mean=-0.

Latest revision as of 15:31, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:57458919..57458991,+p1@Galnt10
Mm9::chr11:84642483..84642525,-p1@Dhrs11
Mm9::chr12:33063557..33063572,+p3@2010109K11Rik
Mm9::chr17:15842061..15842106,+p3@Chd1
Mm9::chr17:46290446..46290460,-p1@Mad2l1bp
Mm9::chr18:24364438..24364503,+p1@Galnt1
Mm9::chr1:75188578..75188590,-p2@Atg9a
Mm9::chr6:142705230..142705276,+p1@Cmas
Mm9::chr7:91032308..91032340,-p@chr7:91032308..91032340
-
Mm9::chr9:107996790..107996818,-p1@Apeh
Mm9::chr9:123587991..123587996,-p3@Slc6a20a
Mm9::chr9:21069731..21069766,+p1@Atg4d
Mm9::chrX:8849797..8849819,+p3@Xk


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:0004653polypeptide N-acetylgalactosaminyltransferase activity0.000566725614251403
GO:0000045autophagic vacuole formation0.000679549177208376
GO:0016236macroautophagy0.000857777081629178
GO:0006493protein amino acid O-linked glycosylation0.000857777081629178
GO:0008376acetylgalactosaminyltransferase activity0.00115257757902626
GO:0006914autophagy0.00158621706421227
GO:0004254acylaminoacyl-peptidase activity0.00828835513765295
GO:0046380N-acetylneuraminate biosynthetic process0.00828835513765295
GO:0006055CMP-N-acetylneuraminate biosynthetic process0.00828835513765295
GO:0008781N-acylneuraminate cytidylyltransferase activity0.00828835513765295
GO:0044260cellular macromolecule metabolic process0.00828835513765295
GO:0006486protein amino acid glycosylation0.00878859766631657
GO:0043413biopolymer glycosylation0.00878859766631657
GO:0009101glycoprotein biosynthetic process0.00901964363343722
GO:0008194UDP-glycosyltransferase activity0.00901964363343722
GO:0010458exit from mitosis0.00923152984405496
GO:0007096regulation of exit from mitosis0.00923152984405496
GO:0046381CMP-N-acetylneuraminate metabolic process0.00923152984405496
GO:0009100glycoprotein metabolic process0.00923152984405496
GO:0046349amino sugar biosynthetic process0.012937405519242
GO:0030145manganese ion binding0.0132662260938459
GO:0016758transferase activity, transferring hexosyl groups0.0132662260938459
GO:0006623protein targeting to vacuole0.0132662260938459
GO:0031577spindle checkpoint0.0132662260938459
GO:0007094mitotic cell cycle spindle assembly checkpoint0.0132662260938459
GO:0004287prolyl oligopeptidase activity0.0132662260938459
GO:0006054N-acetylneuraminate metabolic process0.0153949239150981
GO:0009103lipopolysaccharide biosynthetic process0.0153949239150981
GO:0008653lipopolysaccharide metabolic process0.0178329689111877
GO:0009059macromolecule biosynthetic process0.0179453624259304
GO:0006464protein modification process0.0190818816704501
GO:0005529sugar binding0.0190818816704501
GO:0043170macromolecule metabolic process0.0190818816704501
GO:0005776autophagic vacuole0.0199408765789399
GO:0043412biopolymer modification0.0199408765789399
GO:0044267cellular protein metabolic process0.0218314779056188
GO:0009225nucleotide-sugar metabolic process0.0232749102562406
GO:0043283biopolymer metabolic process0.0238872510415754
GO:0019538protein metabolic process0.0238872510415754
GO:0016757transferase activity, transferring glycosyl groups0.0238872510415754
GO:0007093mitotic cell cycle checkpoint0.0272875016985292
GO:0030246carbohydrate binding0.0294478761128146
GO:0007034vacuolar transport0.032001503259874
GO:0044238primary metabolic process0.0342896104863733
GO:0033692cellular polysaccharide biosynthetic process0.0342896104863733
GO:0044237cellular metabolic process0.0342896104863733
GO:0000271polysaccharide biosynthetic process0.0347447506610004
GO:0006040amino sugar metabolic process0.0429267362778861
GO:0000075cell cycle checkpoint0.045421988369312
GO:0007088regulation of mitosis0.045421988369312
GO:0006612protein targeting to membrane0.045421988369312
GO:0006996organelle organization and biogenesis0.0467803401819175
GO:0044424intracellular part0.0484305767306152
GO:0009058biosynthetic process0.0495273173252612



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
gastrointestinal system3.63e-1347
intestine1.19e-1131
organ component layer2.07e-1124
digestive system1.47e-10116
digestive tract1.47e-10116
primitive gut1.47e-10116
endoderm-derived structure2.42e-10118
endoderm2.42e-10118
presumptive endoderm2.42e-10118
subdivision of digestive tract1.05e-09114
mucosa1.08e-0915
intestinal mucosa1.48e-0813
anatomical wall1.48e-0813
wall of intestine1.48e-0813
gastrointestinal system mucosa1.48e-0813
digestive tract diverticulum2.46e-0823
sac2.46e-0823
liver6.54e-0822
epithelial sac6.54e-0822
digestive gland6.54e-0822
epithelium of foregut-midgut junction6.54e-0822
anatomical boundary6.54e-0822
hepatobiliary system6.54e-0822
foregut-midgut junction6.54e-0822
hepatic diverticulum6.54e-0822
liver primordium6.54e-0822
septum transversum6.54e-0822
liver bud6.54e-0822
exocrine gland1.02e-0725
exocrine system1.02e-0725


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)
MA0003.16.20134
MA0004.10.279808
MA0006.10.451962
MA0007.10.267314
MA0009.10.678286
MA0014.13.9637
MA0017.10.166909
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.470606
MA0029.10.616052
MA0030.10.622264
MA0031.10.588678
MA0038.10.405578
MA0040.10.690239
MA0041.10.218039
MA0042.10.207696
MA0043.10.771094
MA0046.10.712646
MA0048.10.332541
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.10.332124
MA0056.10
MA0057.10.554814
MA0058.10.202403
MA0059.10.212009
MA0060.10.646504
MA0061.10.113212
MA0063.10
MA0066.11.02437
MA0067.11.01206
MA0068.10.571204
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.11.16238
MA0074.11.70003
MA0076.11.62009
MA0077.10.660245
MA0078.10.443468
MA0081.10.230351
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.11.75662
MA0089.10
MA0090.10.251458
MA0091.10.290854
MA0092.10.70143
MA0093.10.161141
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.625174
MA0103.10.174916
MA0105.10.196316
MA0106.10.450539
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.10.727672
MA0113.10.424958
MA0114.10.727901
MA0115.10.773793
MA0116.10.451594
MA0117.10.742722
MA0119.10.219527
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.11.25498
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.38151
MA0139.10.5556
MA0140.10.931776
MA0141.10.18979
MA0142.10.575041
MA0143.10.439766
MA0144.10.1137
MA0145.10.4279
MA0146.13.87026
MA0147.10.773525
MA0148.10.293462
MA0149.10.223436
MA0062.20.783196
MA0035.20.357786
MA0039.24.48813
MA0138.20.495254
MA0002.20.266731
MA0137.20.187581
MA0104.21.01662
MA0047.20.404891
MA0112.21.02934
MA0065.20.224871
MA0150.10.737147
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.10.932301
MA0155.11.13617
MA0156.10.532949
MA0157.10.545026
MA0158.10
MA0159.11.30609
MA0160.10.296006
MA0161.10
MA0162.15.32004
MA0163.12.58612
MA0164.10.381832
MA0080.20.509758
MA0018.20.390455
MA0099.20.489441
MA0079.24.87153
MA0102.21.38728
MA0258.10.336791
MA0259.11.2164
MA0442.10
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