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MCL coexpression mm9:232: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0.714975262793003,0.621694909807424,0.856499824105913,0.902919949222061,0.502758932778609,0.491713717070529,0.0527413783866199,0,0.0196902943622092,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0644551523736777,0.0896964873768703,0.518109443993596,0.431054477729275,0.399379240739151,0.0377777541586983,0.0976147801771522,0.126742805154411,0,0,0,0.899406734188964,0.411264302367486,0.864890966505215,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.389045962020779,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0498445641291176,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.123988367667141,0.0284978791781446,0,0,0,0,0,0,0,0,0,0,0,0,0.0424914383301275,0.0788703512227347,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.056886356216389,0,0,0,0,0,0,0,0,0,0,0.0341002753866071,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0002563!1.81e-31!9;CL:0002251!1.81e-31!9;CL:0000066!8.48e-22!25;CL:0000239!1.88e-21!6;CL:0000677!1.88e-21!6;CL:0000212!1.88e-21!6;CL:0000584!1.88e-21!6;CL:0000075!2.66e-18!7;CL:0002076!2.93e-18!15;CL:0000223!2.29e-16!20;CL:0002250!1.45e-11!3;CL:0000627!4.04e-11!3;CL:0000682!4.04e-11!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000344!2.16e-49!15;UBERON:0001242!2.18e-43!13;UBERON:0000060!2.18e-43!13;UBERON:0001262!2.18e-43!13;UBERON:0004786!2.18e-43!13;UBERON:0003350!1.81e-31!9;UBERON:0004808!1.81e-31!9;UBERON:0001277!1.81e-31!9;UBERON:0004923!9.39e-30!24;UBERON:0000160!1.37e-28!31;UBERON:0000485!1.81e-25!11;UBERON:0005409!6.35e-20!47;UBERON:0000331!2.70e-10!3;UBERON:0002116!2.70e-10!3;UBERON:0001204!2.70e-10!3;UBERON:0001168!2.70e-10!3;UBERON:0001007!6.45e-10!116;UBERON:0001555!6.45e-10!116;UBERON:0007026!6.45e-10!116;UBERON:0004119!1.12e-09!118;UBERON:0000925!1.12e-09!118;UBERON:0006595!1.12e-09!118;UBERON:0004921!5.68e-08!114;UBERON:0002108!7.80e-08!4;UBERON:0000064!1.17e-07!99;UBERON:0001962!2.11e-07!2;UBERON:0001961!2.11e-07!2;UBERON:0001744!2.11e-07!2
}}

Latest revision as of 14:56, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:19251573..19251584,+p@chr10:19251573..19251584
+
Mm9::chr10:19311485..19311498,-p@chr10:19311485..19311498
-
Mm9::chr10:19311507..19311518,-p@chr10:19311507..19311518
-
Mm9::chr10:80084956..80084961,+p@chr10:80084956..80084961
+
Mm9::chr13:29045783..29045789,+p@chr13:29045783..29045789
+
Mm9::chr13:49066571..49066574,-p@chr13:49066571..49066574
-
Mm9::chr16:91548532..91548555,-p@chr16:91548532..91548555
-
Mm9::chr17:48557501..48557504,-p@chr17:48557501..48557504
-
Mm9::chr17:57201412..57201418,-p@chr17:57201412..57201418
-
Mm9::chr17:88027583..88027596,-p@chr17:88027583..88027596
-
Mm9::chr18:35020075..35020080,-p@chr18:35020075..35020080
-
Mm9::chr18:36576247..36576252,-p@chr18:36576247..36576252
-
Mm9::chr19:53113331..53113339,+p@chr19:53113331..53113339
+
Mm9::chr1:37598054..37598057,+p@chr1:37598054..37598057
+
Mm9::chr1:88423123..88423134,-p@chr1:88423123..88423134
-
Mm9::chr2:32390106..32390122,+p@chr2:32390106..32390122
+
Mm9::chr2:38781010..38781017,+p@chr2:38781010..38781017
+
Mm9::chr3:38384117..38384133,+p@chr3:38384117..38384133
+
Mm9::chr5:135442713..135442733,+p@chr5:135442713..135442733
+
Mm9::chr5:145015979..145015991,-p@chr5:145015979..145015991
-
Mm9::chr5:145119593..145119596,+p@chr5:145119593..145119596
+
Mm9::chr5:149995849..149995870,-p3@5730422E09Rik
Mm9::chr5:29705144..29705147,+p4@ENSMUST00000167870
Mm9::chr5:73038906..73038922,-p@chr5:73038906..73038922
-
Mm9::chr6:134870305..134870314,-p@chr6:134870305..134870314
-
Mm9::chr7:123602470..123602475,-p@chr7:123602470..123602475
-
Mm9::chr7:19814274..19814293,+p@chr7:19814274..19814293
+
Mm9::chr7:19814309..19814320,+p@chr7:19814309..19814320
+
Mm9::chr7:29382208..29382215,+p@chr7:29382208..29382215
+
Mm9::chr7:29617397..29617411,+p@chr7:29617397..29617411
+
Mm9::chr7:29716734..29716736,+p@chr7:29716734..29716736
+
Mm9::chr7:4101973..4101978,-p4@Leng9
Mm9::chr7:52317191..52317193,+p@chr7:52317191..52317193
+
Mm9::chr8:126155114..126155118,+p1@uc009nwl.1
Mm9::chr8:35868112..35868121,+p@chr8:35868112..35868121
+
Mm9::chr9:66888952..66888964,+p@chr9:66888952..66888964
+


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

no results for this coexpression

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
mucosa2.16e-4915
intestinal mucosa2.18e-4313
anatomical wall2.18e-4313
wall of intestine2.18e-4313
gastrointestinal system mucosa2.18e-4313
epithelium of mucosa1.81e-319
gastrointestinal system epithelium1.81e-319
intestinal epithelium1.81e-319
organ component layer9.39e-3024
intestine1.37e-2831
simple columnar epithelium1.81e-2511
gastrointestinal system6.35e-2047
ileal mucosa2.70e-103
ileum2.70e-103
mucosa of small intestine2.70e-103
wall of small intestine2.70e-103
digestive system6.45e-10116
digestive tract6.45e-10116
primitive gut6.45e-10116
endoderm-derived structure1.12e-09118
endoderm1.12e-09118
presumptive endoderm1.12e-09118
subdivision of digestive tract5.68e-08114
small intestine7.80e-084
organ part1.17e-0799
gut-associated lymphoid tissue2.11e-072
mucosa-associated lymphoid tissue2.11e-072
lymphoid tissue2.11e-072


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)
MA0003.10.0146082
MA0004.10.214348
MA0006.10.869045
MA0007.10.198103
MA0009.10.319708
MA0014.10.474038
MA0017.10.212982
MA0019.10.191101
MA0024.10.286848
MA0025.10.510245
MA0027.11.86664
MA0028.10.37014
MA0029.10.270957
MA0030.10.275727
MA0031.10.25021
MA0038.10.395619
MA0040.10.329301
MA0041.10.138104
MA0042.10.126435
MA0043.11.02469
MA0046.13.41524
MA0048.10.257228
MA0050.10.549684
MA0051.10.130333
MA0052.10.89148
MA0055.10.0159494
MA0056.10
MA0057.10.338478
MA0058.10.288373
MA0059.10.131258
MA0060.13.07074
MA0061.10.413357
MA0063.10
MA0066.10.11962
MA0067.10.607746
MA0068.12.10899
MA0069.10.335786
MA0070.10.328303
MA0071.10.257812
MA0072.10.321801
MA0073.10.00190901
MA0074.10.680422
MA0076.10.242571
MA0077.10.823879
MA0078.10.455196
MA0081.10.35127
MA0083.13.70545
MA0084.10.910864
MA0087.10.360752
MA0088.10.175426
MA0089.10
MA0090.10.400464
MA0091.10.229021
MA0092.10.178376
MA0093.10.390267
MA0095.10
MA0098.10
MA0100.10.654154
MA0101.10.325533
MA0103.11.04667
MA0105.10.257502
MA0106.10.153484
MA0107.10.42136
MA0108.21.12169
MA0109.10
MA0111.10.428131
MA0113.10.137307
MA0114.10.634231
MA0115.11.02966
MA0116.10.0662958
MA0117.10.372208
MA0119.10.0349497
MA0122.10.388118
MA0124.10.560604
MA0125.10.496324
MA0130.10
MA0131.10.188202
MA0132.10
MA0133.10
MA0135.10.425686
MA0136.10.726251
MA0139.10.0547274
MA0140.10.653895
MA0141.10.26095
MA0142.10.674352
MA0143.10.880912
MA0144.10.237111
MA0145.11.83278
MA0146.10.3972
MA0147.10.454096
MA0148.10.0653262
MA0149.10.0363416
MA0062.20.157118
MA0035.20.664537
MA0039.29.34663
MA0138.20.183173
MA0002.20.411424
MA0137.20.256217
MA0104.20.690022
MA0047.20.394556
MA0112.20.0322909
MA0065.20.616588
MA0150.10.197983
MA0151.10
MA0152.10.125121
MA0153.12.91617
MA0154.10.249362
MA0155.10.0456195
MA0156.10.45615
MA0157.10.218114
MA0158.10
MA0159.10.283903
MA0160.10.235961
MA0161.10
MA0162.11.18324
MA0163.10.0445595
MA0164.10.727093
MA0080.20.691902
MA0018.21.79088
MA0099.20.529819
MA0079.20.970692
MA0102.20.960792
MA0258.10.0950215
MA0259.10.114494
MA0442.10
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