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MCL coexpression mm9:963: Difference between revisions

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{{MCL_coexpression_mm9
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junction;0.00246194977465085;224912,12739!GO:0043296;apical junction complex;0.00246194977465085;224912,12739!GO:0016327;apicolateral plasma membrane;0.00246194977465085;224912,12739!GO:0050577;GDP-L-fucose synthase activity;0.00246194977465085;22122!GO:0003978;UDP-glucose 4-epimerase activity;0.00246194977465085;74246!GO:0050662;coenzyme binding;0.00246194977465085;22122,74246!GO:0005911;intercellular junction;0.00316853207102322;224912,12739!GO:0016853;isomerase activity;0.00316853207102322;22122,74246!GO:0048037;cofactor binding;0.00343874979263409;22122,74246!GO:0045198;establishment of epithelial cell polarity;0.00543338323525149;224912!GO:0006012;galactose metabolic process;0.00565930905470452;74246!GO:0030859;polarized epithelial cell differentiation;0.00565930905470452;224912!GO:0035089;establishment of apical/basal cell polarity;0.00582052519543573;224912!GO:0016338;calcium-independent cell-cell adhesion;0.00582052519543573;12739!GO:0016857;racemase and epimerase activity, 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|ontology_enrichment_celltype=CL:0000066!1.93e-09!25;CL:0000223!3.84e-07!20;CL:0002563!4.71e-07!9;CL:0002251!4.71e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!1.80e-16!31;UBERON:0004119!3.06e-15!118;UBERON:0000925!3.06e-15!118;UBERON:0006595!3.06e-15!118;UBERON:0001007!8.68e-15!116;UBERON:0001555!8.68e-15!116;UBERON:0007026!8.68e-15!116;UBERON:0004921!1.06e-13!114;UBERON:0005409!5.66e-13!47;UBERON:0000344!5.78e-11!15;UBERON:0005177!2.04e-10!79;UBERON:0001242!1.14e-09!13;UBERON:0000060!1.14e-09!13;UBERON:0001262!1.14e-09!13;UBERON:0004786!1.14e-09!13;UBERON:0000466!1.27e-09!79;UBERON:0002100!4.86e-08!90;UBERON:0000485!2.32e-07!11;UBERON:0003350!4.71e-07!9;UBERON:0004808!4.71e-07!9;UBERON:0001277!4.71e-07!9
}}

Latest revision as of 16:10, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:75760163..75760202,-p1@Tsta3
Mm9::chr17:57201683..57201738,+p1@Crb3
Mm9::chr4:135519657..135519675,+p1@Gale
Mm9::chr5:135461886..135461903,+p3@Cldn3
Mm9::chr5:135462061..135462140,+p1@Cldn3
Mm9::chr5:135462146..135462162,+p4@Cldn3
Mm9::chr5:135462172..135462193,+p2@Cldn3
Mm9::chr7:4741143..4741216,-p1@2210411K11Rik


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:0005923tight junction0.00246194977465085
GO:0043296apical junction complex0.00246194977465085
GO:0016327apicolateral plasma membrane0.00246194977465085
GO:0050577GDP-L-fucose synthase activity0.00246194977465085
GO:0003978UDP-glucose 4-epimerase activity0.00246194977465085
GO:0050662coenzyme binding0.00246194977465085
GO:0005911intercellular junction0.00316853207102322
GO:0016853isomerase activity0.00316853207102322
GO:0048037cofactor binding0.00343874979263409
GO:0045198establishment of epithelial cell polarity0.00543338323525149
GO:0006012galactose metabolic process0.00565930905470452
GO:0030859polarized epithelial cell differentiation0.00565930905470452
GO:0035089establishment of apical/basal cell polarity0.00582052519543573
GO:0016338calcium-independent cell-cell adhesion0.00582052519543573
GO:0016857racemase and epimerase activity, acting on carbohydrates and derivatives0.00594129780225743
GO:0045197establishment and/or maintenance of epithelial cell polarity0.00594129780225743
GO:0045216intercellular junction assembly and maintenance0.00639011442359807
GO:0009225nucleotide-sugar metabolic process0.00740428882746588
GO:0001738morphogenesis of a polarized epithelium0.00740428882746588
GO:0035088establishment and/or maintenance of apical/basal cell polarity0.00740428882746588
GO:0030054cell junction0.00740428882746588
GO:0016854racemase and epimerase activity0.00740428882746588
GO:0030010establishment of cell polarity0.00767192954625124
GO:0007028cytoplasm organization and biogenesis0.00961134086558938
GO:0007163establishment and/or maintenance of cell polarity0.0130187005868609
GO:0030855epithelial cell differentiation0.0187584578422186
GO:0016324apical plasma membrane0.0245604382893872
GO:0045177apical part of cell0.0371309899944031



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>

Cell Type
Ontology termp-valuen
epithelial cell1.93e-0925
endodermal cell3.84e-0720
intestinal epithelial cell4.71e-079
epithelial cell of alimentary canal4.71e-079


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)
MA0003.10.241599
MA0004.10.434673
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.11.16295
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.11.40661
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.10.335404
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.10.523649
MA0056.10
MA0057.10.643187
MA0058.10.90507
MA0059.10.353484
MA0060.10.197678
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.11.09399
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.126.5279
MA0074.10.531046
MA0076.10.845594
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.853781
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.787675
MA0095.10
MA0098.10
MA0100.11.29122
MA0101.10.362124
MA0103.11.49915
MA0105.10.133231
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.10.222763
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.951747
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.169849
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.0701568
MA0146.10.198184
MA0147.10.236889
MA0148.10.450593
MA0149.10.367458
MA0062.21.36227
MA0035.20.524137
MA0039.26.39474
MA0138.20.675599
MA0002.20.988033
MA0137.20.863775
MA0104.20.18504
MA0047.20.576767
MA0112.21.35357
MA0065.20.0704227
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.11.65123
MA0155.10.0804339
MA0156.10.843735
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.10.453546
MA0161.10
MA0162.12.37545
MA0163.10.212034
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.20.669311
MA0079.21.84112
MA0102.21.59466
MA0258.10.210437
MA0259.10.227035
MA0442.10
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