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MCL coexpression mm9:524: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0986886653414259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0.145655854350189,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.087487890421272,0.163891642222267,0.383275722246235,0.612641188244243,0.633045169241291,0.384284538934029,0.416149295945905,0.632872577897857,0.516173998030348,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0435794416222198,0,0,0,0,0,0.0194374924235553,0.0269518943326477,0.0357392340837099,0,0,0,0,0.0298193647598867,0,0.0709519923534245,0,0,0.0390607415003592,0,0,0.0507136604151505,0.0553034373508932,0,0,0.020400916685161,0,0.0312791175364151,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0004184;lysine carboxypeptidase activity;0.0219118045903106;93721!GO:0005118;sevenless binding;0.0219118045903106;70355!GO:0008474;palmitoyl-(protein) hydrolase activity;0.0219118045903106;54397!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002113!7.43e-23!14;UBERON:0003918!7.43e-23!14;UBERON:0011143!7.43e-23!14;UBERON:0005095!7.43e-23!14;UBERON:0007687!7.43e-23!14;UBERON:0006554!1.84e-17!18;UBERON:0001008!1.81e-16!19;UBERON:0000489!9.21e-15!21
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}}

Latest revision as of 15:27, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:114712915..114712926,+p14@Gprc5c
Mm9::chr11:83689030..83689057,+p@chr11:83689030..83689057
+
Mm9::chr17:34764027..34764037,-p16@Ppt2
Mm9::chr19:44043033..44043053,-p9@Cpn1
Mm9::chr19:7785753..7785803,-p1@Slc22a19
Mm9::chr19:8692536..8692546,+p6@Slc22a6
Mm9::chr2:167127711..167127721,-p@chr2:167127711..167127721
-
Mm9::chr3:121942710..121942721,-p@chr3:121942710..121942721
-
Mm9::chr4:137341583..137341592,-p17@Alpl
Mm9::chr6:29809374..29809381,+p11@Ahcyl2
Mm9::chr6:41630729..41630742,-p1@Trpv5
Mm9::chr7:126783811..126783819,+p@chr7:126783811..126783819
+
Mm9::chr8:108119094..108119103,+p@chr8:108119094..108119103
+
Mm9::chrX:136342297..136342307,+p@chrX:136342297..136342307
+


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:0004184lysine carboxypeptidase activity0.0219118045903106
GO:0005118sevenless binding0.0219118045903106
GO:0008474palmitoyl-(protein) hydrolase activity0.0219118045903106



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
kidney7.43e-2314
kidney mesenchyme7.43e-2314
upper urinary tract7.43e-2314
kidney rudiment7.43e-2314
kidney field7.43e-2314
urinary system structure1.84e-1718
renal system1.81e-1619
cavitated compound organ9.21e-1521


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)
MA0003.10.0100854
MA0004.10.258473
MA0006.10.817804
MA0007.10.246385
MA0009.10.649874
MA0014.10.023905
MA0017.10.458117
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.138956
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.577334
MA0042.10.553522
MA0043.10.74191
MA0046.12.75684
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.10.0652519
MA0056.10
MA0057.10.261486
MA0058.10.183941
MA0059.10.19314
MA0060.10.0819399
MA0061.11.11472
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.807617
MA0069.10.669676
MA0070.10.660488
MA0071.10.788348
MA0072.10.652465
MA0073.10.509771
MA0074.10.340281
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.605506
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.569713
MA0089.10
MA0090.10.231074
MA0091.10.741628
MA0092.10.653984
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.477056
MA0105.10.170132
MA0106.10.425111
MA0107.10.46624
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.11.03368
MA0114.10.665298
MA0115.10.744589
MA0116.10.411741
MA0117.10.713754
MA0119.10.580747
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.11.82901
MA0136.10.357464
MA0139.10.0649474
MA0140.10.330266
MA0141.10.985967
MA0142.10.547747
MA0143.10.414534
MA0144.10.100037
MA0145.10.0158349
MA0146.10.00143436
MA0147.10.349075
MA0148.10.271704
MA0149.10.204102
MA0062.20.046824
MA0035.20.33429
MA0039.20.000784583
MA0138.20.469076
MA0002.20.235791
MA0137.20.169785
MA0104.20.0740839
MA0047.20.380343
MA0112.20.0731504
MA0065.20.616691
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.118426
MA0155.10.22104
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.11.37966
MA0161.10
MA0162.10.0453371
MA0163.10.094989
MA0164.10.357779
MA0080.20.153997
MA0018.20.366212
MA0099.21.17093
MA0079.20.626099
MA0102.21.35579
MA0258.10.0900907
MA0259.11.12445
MA0442.10
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