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MCL coexpression mm9:1223: Difference between revisions

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{{MCL_coexpression_mm9
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N-acetylgalactosaminyltransferase activity;0.00777954308880732;14421!GO:0001574;ganglioside biosynthetic process;0.00972203131937673;14421!GO:0030259;lipid glycosylation;0.00972203131937673;14421!GO:0006688;glycosphingolipid biosynthetic process;0.00972203131937673;14421!GO:0001573;ganglioside metabolic process;0.00972203131937673;14421!GO:0009247;glycolipid biosynthetic process;0.00972203131937673;14421!GO:0019915;sequestering of lipid;0.00972203131937673;14421!GO:0006687;glycosphingolipid metabolic process;0.00972203131937673;14421!GO:0030148;sphingolipid biosynthetic process;0.0121475442708201;14421!GO:0006664;glycolipid metabolic process;0.0121475442708201;14421!GO:0008376;acetylgalactosaminyltransferase activity;0.0121475442708201;14421!GO:0006672;ceramide metabolic process;0.0121475442708201;14421!GO:0030258;lipid modification;0.0121475442708201;14421!GO:0030173;integral to Golgi membrane;0.0121475442708201;14421!GO:0046519;sphingoid metabolic process;0.0121475442708201;14421!GO:0031228;intrinsic to Golgi membrane;0.0121475442708201;14421!GO:0006665;sphingolipid metabolic process;0.0191984603543554;14421!GO:0031301;integral to organelle membrane;0.0215808346195295;14421!GO:0031300;intrinsic to organelle membrane;0.0224864167838657;14421!GO:0000139;Golgi membrane;0.0266208409274459;14421!GO:0046467;membrane lipid biosynthetic process;0.0266208409274459;14421!GO:0043413;biopolymer glycosylation;0.0278759404793481;14421!GO:0008194;UDP-glycosyltransferase activity;0.0290209928853652;14421!GO:0044431;Golgi apparatus part;0.0402455026940035;14421!GO:0003924;GTPase activity;0.0402455026940035;56055!GO:0016758;transferase activity, transferring hexosyl groups;0.0402455026940035;14421!GO:0006643;membrane lipid metabolic 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|gostat_on_MCL_coexpression=GO:0003947;(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity;0.00777954308880732;14421!GO:0001574;ganglioside biosynthetic process;0.00972203131937673;14421!GO:0030259;lipid glycosylation;0.00972203131937673;14421!GO:0006688;glycosphingolipid biosynthetic process;0.00972203131937673;14421!GO:0001573;ganglioside metabolic process;0.00972203131937673;14421!GO:0009247;glycolipid biosynthetic process;0.00972203131937673;14421!GO:0019915;sequestering of lipid;0.00972203131937673;14421!GO:0006687;glycosphingolipid metabolic process;0.00972203131937673;14421!GO:0030148;sphingolipid biosynthetic process;0.0121475442708201;14421!GO:0006664;glycolipid metabolic process;0.0121475442708201;14421!GO:0008376;acetylgalactosaminyltransferase activity;0.0121475442708201;14421!GO:0006672;ceramide metabolic process;0.0121475442708201;14421!GO:0030258;lipid modification;0.0121475442708201;14421!GO:0030173;integral to Golgi membrane;0.0121475442708201;14421!GO:0046519;sphingoid metabolic process;0.0121475442708201;14421!GO:0031228;intrinsic to Golgi membrane;0.0121475442708201;14421!GO:0006665;sphingolipid metabolic process;0.0191984603543554;14421!GO:0031301;integral to organelle membrane;0.0215808346195295;14421!GO:0031300;intrinsic to organelle membrane;0.0224864167838657;14421!GO:0000139;Golgi membrane;0.0266208409274459;14421!GO:0046467;membrane lipid biosynthetic process;0.0266208409274459;14421!GO:0043413;biopolymer glycosylation;0.0278759404793481;14421!GO:0008194;UDP-glycosyltransferase activity;0.0290209928853652;14421!GO:0044431;Golgi apparatus part;0.0402455026940035;14421!GO:0003924;GTPase activity;0.0402455026940035;56055!GO:0016758;transferase activity, transferring hexosyl groups;0.0402455026940035;14421!GO:0006643;membrane lipid metabolic process;0.0433290354045682;14421!
|ontology_enrichment_celltype=CL:0000988!4.60e-10!32;CL:0002032!4.60e-10!32;CL:0000037!4.60e-10!32;CL:0000566!4.60e-10!32;CL:0000837!4.60e-10!32;CL:0002031!3.43e-09!25;CL:0002320!2.23e-08!46;CL:0000134!2.23e-08!46;CL:0000838!3.67e-08!12;CL:0000084!7.09e-08!11;CL:0000827!7.09e-08!11;CL:0000738!1.64e-07!17;CL:0002087!1.64e-07!17;CL:0000791!1.83e-07!9;CL:0000789!1.83e-07!9;CL:0002420!1.83e-07!9;CL:0002419!1.83e-07!9;CL:0000790!1.83e-07!9;CL:0000542!5.60e-07!13;CL:0000051!5.60e-07!13;CL:0000624!8.79e-07!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.95e-22!118;UBERON:0000925!2.95e-22!118;UBERON:0006595!2.95e-22!118;UBERON:0001007!9.65e-22!116;UBERON:0001555!9.65e-22!116;UBERON:0007026!9.65e-22!116;UBERON:0004921!1.76e-20!114;UBERON:0002193!1.19e-13!48;UBERON:0002405!1.19e-13!48;UBERON:0005409!2.16e-13!47;UBERON:0003929!5.03e-13!55;UBERON:0002390!5.67e-12!45;UBERON:0003061!5.67e-12!45;UBERON:0000160!1.06e-11!31;UBERON:0004923!7.81e-11!24;UBERON:0005911!2.90e-10!69;UBERON:0000344!4.39e-10!15;UBERON:0000490!1.31e-09!66;UBERON:0001041!5.38e-09!80;UBERON:0001242!7.22e-09!13;UBERON:0000060!7.22e-09!13;UBERON:0001262!7.22e-09!13;UBERON:0004786!7.22e-09!13;UBERON:0002384!2.23e-08!46;UBERON:0000077!6.81e-08!35;UBERON:0004177!1.18e-07!29;UBERON:0005057!1.18e-07!29;UBERON:0003408!4.93e-07!24;UBERON:0000072!5.06e-07!27;UBERON:0007023!5.60e-07!51;UBERON:0002370!7.02e-07!23;UBERON:0000974!7.02e-07!23;UBERON:0004807!7.02e-07!23;UBERON:0005058!7.02e-07!23;UBERON:0003351!7.02e-07!23;UBERON:0009113!7.02e-07!23;UBERON:0003295!7.02e-07!23;UBERON:0009722!7.02e-07!23;UBERON:0005562!7.02e-07!23;UBERON:0007690!7.02e-07!23;UBERON:0006562!7.34e-07!24;UBERON:0001557!7.34e-07!24;UBERON:0001042!7.34e-07!24;UBERON:0008814!7.34e-07!24;UBERON:0009145!7.34e-07!24
}}

Latest revision as of 16:35, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126602348..126602359,+p11@B4galnt1
Mm9::chr10:126602369..126602383,+p5@B4galnt1
Mm9::chr10:126602843..126602860,+p7@B4galnt1
Mm9::chr10:126602861..126602878,+p6@B4galnt1
Mm9::chr10:126602881..126602956,+p2@B4galnt1
Mm9::chr17:46300102..46300132,+p6@Gtpbp2


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:0003947(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity0.00777954308880732
GO:0001574ganglioside biosynthetic process0.00972203131937673
GO:0030259lipid glycosylation0.00972203131937673
GO:0006688glycosphingolipid biosynthetic process0.00972203131937673
GO:0001573ganglioside metabolic process0.00972203131937673
GO:0009247glycolipid biosynthetic process0.00972203131937673
GO:0019915sequestering of lipid0.00972203131937673
GO:0006687glycosphingolipid metabolic process0.00972203131937673
GO:0030148sphingolipid biosynthetic process0.0121475442708201
GO:0006664glycolipid metabolic process0.0121475442708201
GO:0008376acetylgalactosaminyltransferase activity0.0121475442708201
GO:0006672ceramide metabolic process0.0121475442708201
GO:0030258lipid modification0.0121475442708201
GO:0030173integral to Golgi membrane0.0121475442708201
GO:0046519sphingoid metabolic process0.0121475442708201
GO:0031228intrinsic to Golgi membrane0.0121475442708201
GO:0006665sphingolipid metabolic process0.0191984603543554
GO:0031301integral to organelle membrane0.0215808346195295
GO:0031300intrinsic to organelle membrane0.0224864167838657
GO:0000139Golgi membrane0.0266208409274459
GO:0046467membrane lipid biosynthetic process0.0266208409274459
GO:0043413biopolymer glycosylation0.0278759404793481
GO:0008194UDP-glycosyltransferase activity0.0290209928853652
GO:0044431Golgi apparatus part0.0402455026940035
GO:0003924GTPase activity0.0402455026940035
GO:0016758transferase activity, transferring hexosyl groups0.0402455026940035
GO:0006643membrane lipid metabolic process0.0433290354045682



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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure2.95e-22118
endoderm2.95e-22118
presumptive endoderm2.95e-22118
digestive system9.65e-22116
digestive tract9.65e-22116
primitive gut9.65e-22116
subdivision of digestive tract1.76e-20114
hemolymphoid system1.19e-1348
immune system1.19e-1348
gastrointestinal system2.16e-1347
gut epithelium5.03e-1355
hematopoietic system5.67e-1245
blood island5.67e-1245
intestine1.06e-1131
organ component layer7.81e-1124
endo-epithelium2.90e-1069
mucosa4.39e-1015
unilaminar epithelium1.31e-0966
foregut5.38e-0980
intestinal mucosa7.22e-0913
anatomical wall7.22e-0913
wall of intestine7.22e-0913
gastrointestinal system mucosa7.22e-0913
connective tissue2.23e-0846
mixed endoderm/mesoderm-derived structure6.81e-0835
hemopoietic organ1.18e-0729
immune organ1.18e-0729
gland of gut4.93e-0724
segment of respiratory tract5.06e-0727
adult organism5.60e-0751
thymus7.02e-0723
neck7.02e-0723
respiratory system epithelium7.02e-0723
hemolymphoid system gland7.02e-0723
pharyngeal epithelium7.02e-0723
thymic region7.02e-0723
pharyngeal gland7.02e-0723
entire pharyngeal arch endoderm7.02e-0723
thymus primordium7.02e-0723
early pharyngeal endoderm7.02e-0723
pharynx7.34e-0724
upper respiratory tract7.34e-0724
chordate pharynx7.34e-0724
pharyngeal arch system7.34e-0724
pharyngeal region of foregut7.34e-0724


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)
MA0003.11.79006
MA0004.10.536396
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.10.883128
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
MA0048.10.486223
MA0050.11.41229
MA0051.10.695779
MA0052.11.00829
MA0055.10.807132
MA0056.10
MA0057.10.149949
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.12.28505
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.11.22055
MA0074.13.80051
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.725434
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.11.16089
MA0103.10.398766
MA0105.11.72386
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.822296
MA0115.11.08851
MA0116.11.68456
MA0117.11.05576
MA0119.12.02544
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
MA0144.10.829535
MA0145.10.379391
MA0146.13.00399
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.20.591842
MA0035.20.630778
MA0039.21.39094
MA0138.20.788113
MA0002.20.689262
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.23.15789
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.933846
MA0155.10.414701
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.12.40387
MA0160.10.556423
MA0161.10
MA0162.10.70356
MA0163.10.372305
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.21.33539
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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