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MCL coexpression mm9:277: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!7.46e-39!22;UBERON:0007499!7.46e-39!22;UBERON:0006925!7.46e-39!22;UBERON:0009497!7.46e-39!22;UBERON:0000015!7.46e-39!22;UBERON:0002423!7.46e-39!22;UBERON:0006235!7.46e-39!22;UBERON:0008835!7.46e-39!22;UBERON:0003894!7.46e-39!22;UBERON:0004161!7.46e-39!22;UBERON:0008836!7.46e-39!22;UBERON:0009854!4.29e-37!23;UBERON:0009856!4.29e-37!23;UBERON:0002365!5.37e-34!25;UBERON:0002330!5.37e-34!25;UBERON:0005256!4.00e-18!45;UBERON:0003914!2.81e-17!47;UBERON:0005172!1.69e-16!49;UBERON:0005173!1.69e-16!49;UBERON:0002417!1.69e-16!49;UBERON:0000916!1.69e-16!49;UBERON:0003929!1.68e-14!55;UBERON:0002368!3.86e-13!60;UBERON:0003104!6.80e-13!61;UBERON:0009142!6.80e-13!61;UBERON:0002530!5.50e-12!65;UBERON:0000490!8.93e-12!66;UBERON:0009569!8.93e-12!66;UBERON:0005911!3.50e-11!69;UBERON:0001041!5.28e-11!80;UBERON:0000949!1.23e-10!72;UBERON:0000466!1.59e-09!79;UBERON:0005177!1.59e-09!79;UBERON:0002100!3.99e-08!90;UBERON:0004921!4.18e-07!114;UBERON:0001007!6.03e-07!116;UBERON:0001555!6.03e-07!116;UBERON:0007026!6.03e-07!116;UBERON:0004119!8.59e-07!118;UBERON:0000925!8.59e-07!118;UBERON:0006595!8.59e-07!118
|tfbs_overrepresentation_for_novel_motifs=0.511112,0.243472,0.455153,0.085643,0.455666,0.3086,0.435323,1.20854,0.424301,0.0293535,0.372262,0.827427,0.223136,0.453459,0.269498,0,0.278333,0.227749,0.346686,0.963836,0.0435797,0.316516,0.147721,0.096137,0.471125,0.164963,0.0263024,0.102932,0.321497,0.529733,0.0958789,0.937786,0.698352,0.0620335,1.17162,0.0296721,0.982318,0.132062,1.21893,0.0493408,0.722236,0.324583,0.0957023,0.507734,0.12308,0.275593,0.22117,0.358188,0.115829,0.32702,0.265451,0.181937,0.321582,0.473629,0.488593,0.152527,0.148682,0.399341,0.706927,0.461079,0.340494,0.18804,0.463996,0.257242,0.159274,0.287117,0.608645,0.933761,0.336817,0.794446,0.0497287,0.0390121,0.504662,0.517629,0.148682,0.859617,0.265609,0.213375,0.327041,0.388388,0.237691,0.291331,0.548924,0.209469,0.419339,0.894144,0.493036,1.32181,0.638115,1.0899,0.671836,1.08479,0.366627,1.1128,0.337447,0.295144,0.385489,0.368885,0.221346,0.155884,0.982718,0.937292,0.458781,0.734085,0.732312,0.323994,0.309919,0.108981,0.70447,0.0441751,0.495806,0.460295,0.692901,0.379524,0.678281,0.092744,0.606264,0.0874099,0.279301,0.393671,0.522338,1.26073,0.166093,0.610275,0.728107,0.878992,0.447358,0.361192,0.607282,0.255995,0.444416,0.0822682,0.580825,0.160813,0.698098,0.831685,0.529534,0.326471,0.653122,1.45055,1.05907,0.612882,0.993066,0.956294,0.721437,0.32519,0.223324,1.41144,0.250541,0.460495,0.770867,0.0192766,0.474971,0.0116955,0.483303,0.545909,0.182585,0.536326,1.82078,0.0704805,0.661783,0.418628,0.330273,0.226529,0.257983,0.472114,0.658425,0.133212,0.117911
}}

Latest revision as of 15:01, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128397881..128397909,-p@chr10:128397881..128397909
-
Mm9::chr11:102268056..102268066,-p14@Slc25a39
Mm9::chr11:54937428..54937451,+p1@ENSMUST00000121611
Mm9::chr12:105133335..105133377,-p@chr12:105133335..105133377
-
Mm9::chr14:69212351..69212355,+p@chr14:69212351..69212355
+
Mm9::chr16:13189956..13189961,-p@chr16:13189956..13189961
-
Mm9::chr17:46575364..46575373,-p2@Slc22a7
Mm9::chr18:46795982..46795987,-p@chr18:46795982..46795987
-
Mm9::chr19:37772102..37772120,-p@chr19:37772102..37772120
-
Mm9::chr19:37772353..37772360,+p1@Cyp26a1
Mm9::chr1:34293459..34293497,+p@chr1:34293459..34293497
+
Mm9::chr2:30823340..30823350,-p3@Tor1a
Mm9::chr2:30823366..30823376,-p2@Tor1a
Mm9::chr3:62143968..62143980,+p4@Arhgef26
Mm9::chr4:150226831..150226839,+p@chr4:150226831..150226839
+
Mm9::chr4:150229173..150229190,+p1@Errfi1
Mm9::chr4:60595024..60595025,-p1@Mup10
p2@Mup8
Mm9::chr4:63023477..63023485,+p1@Orm2
Mm9::chr5:136116678..136116682,+p@chr5:136116678..136116682
+
Mm9::chr5:140682000..140682011,-p@chr5:140682000..140682011
-
Mm9::chr6:121815744..121815763,+p@chr6:121815744..121815763
+
Mm9::chr7:20277353..20277362,-p@chr7:20277353..20277362
-
Mm9::chr7:27914848..27914882,+p@chr7:27914848..27914882
+
Mm9::chr7:27918335..27918355,+p@chr7:27918335..27918355
+
Mm9::chr7:38000683..38000684,+p@chr7:38000683..38000684
+
Mm9::chr7:87545271..87545285,+p@chr7:87545271..87545285
+
Mm9::chr9:106145626..106145638,-p@chr9:106145626..106145638
-
Mm9::chr9:34935450..34935461,+p@chr9:34935450..34935461
+
Mm9::chr9:46041253..46041286,-p@chr9:46041253..46041286
-
Mm9::chr9:48606435..48606440,+p@chr9:48606435..48606440
+


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>

Cell Type
Ontology termp-valuen
metabolising cell3.96e-185
endopolyploid cell3.96e-185
parenchymal cell3.96e-185
polyploid cell3.96e-185
hepatocyte3.96e-185

Uber Anatomy
Ontology termp-valuen
liver7.46e-3922
epithelial sac7.46e-3922
digestive gland7.46e-3922
epithelium of foregut-midgut junction7.46e-3922
anatomical boundary7.46e-3922
hepatobiliary system7.46e-3922
foregut-midgut junction7.46e-3922
hepatic diverticulum7.46e-3922
liver primordium7.46e-3922
septum transversum7.46e-3922
liver bud7.46e-3922
digestive tract diverticulum4.29e-3723
sac4.29e-3723
exocrine gland5.37e-3425
exocrine system5.37e-3425
trunk mesenchyme4.00e-1845
epithelial tube2.81e-1747
abdomen element1.69e-1649
abdominal segment element1.69e-1649
abdominal segment of trunk1.69e-1649
abdomen1.69e-1649
gut epithelium1.68e-1455
endocrine gland3.86e-1360
mesenchyme6.80e-1361
entire embryonic mesenchyme6.80e-1361
gland5.50e-1265
unilaminar epithelium8.93e-1266
subdivision of trunk8.93e-1266
endo-epithelium3.50e-1169
foregut5.28e-1180
endocrine system1.23e-1072
immaterial anatomical entity1.59e-0979
trunk region element1.59e-0979
trunk3.99e-0890
subdivision of digestive tract4.18e-07114
digestive system6.03e-07116
digestive tract6.03e-07116
primitive gut6.03e-07116
endoderm-derived structure8.59e-07118
endoderm8.59e-07118
presumptive endoderm8.59e-07118


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)
MA0003.10.0441231
MA0004.10.0858689
MA0006.10.107516
MA0007.10.572315
MA0009.10.98466
MA0014.10.0206411
MA0017.11.28624
MA0019.10.238713
MA0024.10.342622
MA0025.10.57681
MA0027.11.94532
MA0028.10.280078
MA0029.10.869303
MA0030.10.330711
MA0031.10.303242
MA0038.10.164914
MA0040.10.387805
MA0041.10.0540602
MA0042.10.184959
MA0043.11.15926
MA0046.11.04898
MA0048.10.158514
MA0050.10.341753
MA0051.10.170484
MA0052.11.02141
MA0055.11.9963
MA0056.10
MA0057.10.237348
MA0058.10.0469235
MA0059.10.0512607
MA0060.10.138666
MA0061.10.355607
MA0063.10
MA0066.10.158169
MA0067.10.677115
MA0068.10.250424
MA0069.10.39467
MA0070.10.386747
MA0071.10.340616
MA0072.10.379853
MA0073.10.00975222
MA0074.10.839631
MA0076.10.345201
MA0077.10.951059
MA0078.10.191654
MA0081.10.216864
MA0083.10.457256
MA0084.10.985399
MA0087.10.421024
MA0088.10.0275644
MA0089.10
MA0090.10.070593
MA0091.10.636516
MA0092.10.248035
MA0093.10.0301253
MA0095.10
MA0098.10
MA0100.10.408164
MA0101.10.443304
MA0103.10.597414
MA0105.10.0581689
MA0106.10.196768
MA0107.10.317874
MA0108.23.70116
MA0109.10
MA0111.10.265025
MA0113.11.01256
MA0114.11.62107
MA0115.10.460306
MA0116.10.261463
MA0117.10.433078
MA0119.11.18399
MA0122.10.449781
MA0124.10.628716
MA0125.11.38199
MA0130.10
MA0131.10.663769
MA0132.10
MA0133.10
MA0135.10.489063
MA0136.10.454208
MA0139.10.380911
MA0140.10.407998
MA0141.10.160688
MA0142.10.292245
MA0143.10.553481
MA0144.10.35748
MA0145.11.22413
MA0146.10.168776
MA0147.10.0782471
MA0148.10.311535
MA0149.10.0566148
MA0062.20.0627172
MA0035.20.132954
MA0039.20.000175026
MA0138.21.21428
MA0002.20.103645
MA0137.20.361578
MA0104.20.0427811
MA0047.20.16444
MA0112.20.73643
MA0065.20.739729
MA0150.10.0789524
MA0151.10
MA0152.10.164506
MA0153.10.503426
MA0154.10.153577
MA0155.10.641206
MA0156.10.343542
MA0157.10.739807
MA0158.10
MA0159.10.216399
MA0160.10.315504
MA0161.10
MA0162.10.00491752
MA0163.13.85399e-05
MA0164.11.43025
MA0080.20.136228
MA0018.20.469233
MA0099.20.22555
MA0079.21.05886e-05
MA0102.21.03585
MA0258.10.811463
MA0259.10.0151996
MA0442.10
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