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MCL coexpression mm9:698: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000838!2.72e-11!12;CL:0002031!2.32e-10!25;CL:0000084!2.80e-10!11;CL:0000827!2.80e-10!11;CL:0000542!4.16e-10!13;CL:0000051!4.16e-10!13;CL:0000988!9.07e-10!32;CL:0002032!9.07e-10!32;CL:0000037!9.07e-10!32;CL:0000566!9.07e-10!32;CL:0000837!9.07e-10!32;CL:0000791!1.59e-09!9;CL:0000789!1.59e-09!9;CL:0002420!1.59e-09!9;CL:0002419!1.59e-09!9;CL:0000790!1.59e-09!9;CL:0000624!1.75e-08!8;CL:0000738!3.75e-08!17;CL:0002087!3.75e-08!17;CL:0002242!1.77e-07!16
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!2.68e-20!48;UBERON:0002405!2.68e-20!48;UBERON:0004177!3.26e-19!29;UBERON:0005057!3.26e-19!29;UBERON:0002390!5.51e-18!45;UBERON:0003061!5.51e-18!45;UBERON:0000077!2.51e-15!35;UBERON:0003408!2.59e-15!24;UBERON:0006562!1.09e-14!24;UBERON:0001557!1.09e-14!24;UBERON:0001042!1.09e-14!24;UBERON:0008814!1.09e-14!24;UBERON:0009145!1.09e-14!24;UBERON:0002370!1.77e-14!23;UBERON:0000974!1.77e-14!23;UBERON:0004807!1.77e-14!23;UBERON:0005058!1.77e-14!23;UBERON:0003351!1.77e-14!23;UBERON:0009113!1.77e-14!23;UBERON:0003295!1.77e-14!23;UBERON:0009722!1.77e-14!23;UBERON:0005562!1.77e-14!23;UBERON:0007690!1.77e-14!23;UBERON:0001004!3.98e-14!42;UBERON:0000065!2.23e-13!41;UBERON:0000072!3.21e-12!27;UBERON:0001041!6.29e-10!80;UBERON:0003081!4.55e-09!87;UBERON:0000063!7.04e-09!35;UBERON:0007811!1.83e-08!36;UBERON:0001007!3.35e-07!116;UBERON:0001555!3.35e-07!116;UBERON:0007026!3.35e-07!116;UBERON:0005911!6.43e-07!69;UBERON:0004119!7.45e-07!118;UBERON:0000925!7.45e-07!118;UBERON:0006595!7.45e-07!118
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.588611,0.297937,0.360062,0.200163,0.975411,0.458558,0.392928,0.411053,0.255527,0.417132,1.9847,0.124608,0.470194,0.214197,0,0.656089,0.19356,0.364803,0.0560853,0.26524,0.336916,0.469335,0.577226,0.304728,0.496413,0.349241,0.392919,0.67135,0.271461,0.379806,0.754912,0.191698,0.31333,0.214608,0.0351598,0.541514,0.443753,0.498354,0.143746,0.196807,0.38461,0.130272,0.215898,0.119503,0.349801,0.578773,0.407653,0.772185,0.677281,0.639101,0.522137,0.550735,0.894161,0.911367,0.47699,0.249055,0.435119,0.332535,0.47505,0.735292,0.531188,0.854737,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,1.3071,0.03967,0.944464,0.0968968,0.0893951,0.0942164,0.567793,0.718494,1.36049,0.406536,0.673009,1.31291,0.764135,0.830765,0.0593483,0.0697823,0.572901,0.583509,1.55487,1.11522,0.835661,0.767462,0.592123,0.163126,0.892226,0.388243,0.770215,0.57902,0.234357,1.03532,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.845852,0.878738,0.26996,0.421988,1.12221,0.195318,0.0839537,0.363536,0.657356,0.181004,0.949798,0.607824,1.24551,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,4.8385,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.580497,0.129005,0.895708,0.153911,0.489108,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.0054279
}}

Latest revision as of 15:44, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:106611963..106611974,-p6@Pecam1
Mm9::chr1:175560944..175560965,+p2@Pyhin1
Mm9::chr1:36518841..36518852,+p@chr1:36518841..36518852
+
Mm9::chr1:87546602..87546617,+p2@Sp100
Mm9::chr1:87546619..87546627,+p3@Sp100
Mm9::chr4:134708909..134708939,+p3@Runx3
Mm9::chr5:64879091..64879112,+p@chr5:64879091..64879112
+
Mm9::chr6:48641353..48641381,+p@chr6:48641353..48641381
+
Mm9::chr7:113584594..113584612,-p1@Gm4759
Mm9::chr7:113584617..113584626,-p2@Gm4759


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
hemolymphoid system2.68e-2048
immune system2.68e-2048
hemopoietic organ3.26e-1929
immune organ3.26e-1929
hematopoietic system5.51e-1845
blood island5.51e-1845
mixed endoderm/mesoderm-derived structure2.51e-1535
gland of gut2.59e-1524
pharynx1.09e-1424
upper respiratory tract1.09e-1424
chordate pharynx1.09e-1424
pharyngeal arch system1.09e-1424
pharyngeal region of foregut1.09e-1424
thymus1.77e-1423
neck1.77e-1423
respiratory system epithelium1.77e-1423
hemolymphoid system gland1.77e-1423
pharyngeal epithelium1.77e-1423
thymic region1.77e-1423
pharyngeal gland1.77e-1423
entire pharyngeal arch endoderm1.77e-1423
thymus primordium1.77e-1423
early pharyngeal endoderm1.77e-1423
respiratory system3.98e-1442
respiratory tract2.23e-1341
segment of respiratory tract3.21e-1227
foregut6.29e-1080
lateral plate mesoderm4.55e-0987
organ segment7.04e-0935
craniocervical region1.83e-0836
digestive system3.35e-07116
digestive tract3.35e-07116
primitive gut3.35e-07116
endo-epithelium6.43e-0769
endoderm-derived structure7.45e-07118
endoderm7.45e-07118
presumptive endoderm7.45e-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)
MA0003.10.119771
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.00520703
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.11.44369
MA0042.10.76637
MA0043.10.875991
MA0046.10.816137
MA0048.10.873214
MA0050.14.7862
MA0051.11.25986
MA0052.10.801048
MA0055.10.0660514
MA0056.10
MA0057.11.2407
MA0058.10.273976
MA0059.10.28489
MA0060.10.145297
MA0061.10.16896
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.484739
MA0069.10.801381
MA0070.11.85999
MA0071.10.395679
MA0072.10.783532
MA0073.10.116023
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.824359
MA0083.10.875209
MA0084.11.44691
MA0087.11.94414
MA0088.10.34573
MA0089.10
MA0090.10.329158
MA0091.11.7303
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.242398
MA0105.10.0911942
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.167085
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.796817
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.12.06348
MA0139.10.121562
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.506239
MA0145.10.042251
MA0146.10.234806
MA0147.10.179496
MA0148.10.979954
MA0149.10.2978
MA0062.20.649383
MA0035.20.44524
MA0039.20.11913
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.134457
MA0047.20.495607
MA0112.20.163154
MA0065.20.665832
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.0653255
MA0155.10.416651
MA0156.11.98864
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.378276
MA0161.10
MA0162.10.134999
MA0163.10.252535
MA0164.11.1874
MA0080.22.70708
MA0018.20.480226
MA0099.20.584892
MA0079.20.0249319
MA0102.21.49914
MA0258.10.921856
MA0259.10.50935
MA0442.10
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