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MCL coexpression mm9:898: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.22173221893217,0.32452691780212,0,0.792610230553809,0.776218193489275,0.659262101664356,0.0354470656487682,0.0598901845081536,0.100783889465809,0.531464398833362,0.632503327366305,0,0,0,0,0.0488073900885761,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.655468327864616,0,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681426399143868,0.428130054798268,0,0,0,0,0,0,0,0,0,0,0.0651189800845078,0.110384034262095,0.171689969376673,0,0,0,0.049400930804471,0,0,0,0,0,0,0,0,0,0,0,0.156572162711618,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.101901855392646,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.046916887530847,0.0893808373671195,0.054906696497384,0.0936166775853224,0.10536076625968,0,0.068699362409361,0.058973152653538,0,0,0,0.136564059910207,0,0,0,0,0.0672592169170953,0,0,0.0635717028550276,0,0.0321269055488328,0.0945053225286664,0.0691813633419548,0.0586723554240733,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0331573937563205,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.389328047541376,0.1157796068285,0.105316759366405,0.219221434951249,0.275835256160611,0.328715748945731,0,0,0.14855113538485,0,0,0,0,0,0,0,0.017244733229267,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.119259559192106,0.509199479326816,0.725085372273376,0.75904371774827,0.765126084176494,0.599365366447383,0.421489331088643,0.419060609151495,0.2919303952587,0.322610530350615,0.242956665154487,0.0943626908839136,0.141401909492123,0.198675706692166,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0242538736058389,0,0.0238095886952444,0,0,0,0,0,0,0.0294684307081759,0,0.017637724668944,0,0,0,0,0.0486884105045233,0,0,0,0,0,0.0456455446387725,0,0,0.0865703124974023,0.128013386275029
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000553!2.86e-07!6;CL:0000556!2.86e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!4.71e-20!48;UBERON:0002405!4.71e-20!48;UBERON:0004177!1.45e-17!29;UBERON:0005057!1.45e-17!29;UBERON:0002390!1.73e-16!45;UBERON:0003061!1.73e-16!45;UBERON:0000077!1.67e-13!35;UBERON:0001041!2.20e-13!80;UBERON:0000065!5.54e-11!41;UBERON:0002370!7.38e-11!23;UBERON:0000974!7.38e-11!23;UBERON:0004807!7.38e-11!23;UBERON:0005058!7.38e-11!23;UBERON:0003351!7.38e-11!23;UBERON:0009113!7.38e-11!23;UBERON:0003295!7.38e-11!23;UBERON:0009722!7.38e-11!23;UBERON:0005562!7.38e-11!23;UBERON:0007690!7.38e-11!23;UBERON:0001004!1.40e-10!42;UBERON:0006562!3.07e-10!24;UBERON:0003408!3.07e-10!24;UBERON:0001557!3.07e-10!24;UBERON:0001042!3.07e-10!24;UBERON:0008814!3.07e-10!24;UBERON:0009145!3.07e-10!24;UBERON:0001007!6.04e-10!116;UBERON:0001555!6.04e-10!116;UBERON:0007026!6.04e-10!116;UBERON:0004119!1.34e-09!118;UBERON:0000925!1.34e-09!118;UBERON:0006595!1.34e-09!118;UBERON:0005911!3.04e-09!69;UBERON:0002106!4.61e-09!6;UBERON:0004457!4.61e-09!6;UBERON:0000042!4.61e-09!6;UBERON:0004854!4.61e-09!6;UBERON:0009034!4.61e-09!6;UBERON:0002095!4.61e-09!6;UBERON:0004782!4.61e-09!6;UBERON:0003281!4.61e-09!6;UBERON:0009664!4.61e-09!6;UBERON:0002296!4.61e-09!6;UBERON:0005602!4.61e-09!6;UBERON:0001179!4.61e-09!6;UBERON:0006293!4.61e-09!6;UBERON:0000072!1.14e-08!27;UBERON:0004921!1.46e-08!114;UBERON:0003081!7.37e-08!87;UBERON:0003887!8.84e-07!10;UBERON:0003929!9.43e-07!55
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.534222,0.367606,0.434198,0.720982,0.448401,0.538088,0.515265,1.02512,0.170907,0.494602,0.526159,0.173454,0.550255,0.275867,0,0.742571,0.703873,0.483643,0.29826,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,1.45743,0.469052,0.303071,1.23861,0.455168,0.843667,1.29258,0.425071,0.276324,0.363049,0.242032,0.522578,0.631914,0.195877,0.256422,0.460258,0.450632,0.761266,0.663502,0.423266,0.662995,0.484612,0.687215,0.305876,0.725127,0.604356,0.732634,0.985264,1.00271,0.557354,0.314394,0.513517,2.03255,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,1.78254,1.139,1.48833,0.818971,1.34113,0.349355,0.178433,0.236196,1.03623,0.140213,0.131016,1.35784,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.108172,0.123242,0.376919,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,0.585369,0.982739,0.859272,1.59353,0.101559,1.26039,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,2.09671,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.708441,2.33941,0.437894,0.743872,1.24715,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,1.82874,0.461647,1.18819,2.01886,1.6187,1.14372,1.44306,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,1.33415,1.25168,0.203102,0.986833,0.207643,0.569994,1.06851,0.605358,0.782826,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.166768
}}

Latest revision as of 16:04, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:32100273..32100286,-p1@Il9r
Mm9::chr14:64035654..64035682,-p3@Blk
Mm9::chr18:35808966..35808982,-p@chr18:35808966..35808982
-
Mm9::chr18:35808989..35808998,-p3@2010001M09Rik
Mm9::chr18:35809003..35809028,-p1@2010001M09Rik
Mm9::chr5:121144599..121144612,-p@chr5:121144599..121144612
-
Mm9::chr9:121846895..121846923,+p4@1700048O20Rik
Mm9::chr9:70082969..70083013,+p@chr9:70082969..70083013
+


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
megakaryocyte progenitor cell2.86e-076
megakaryocyte2.86e-076

Uber Anatomy
Ontology termp-valuen
hemolymphoid system4.71e-2048
immune system4.71e-2048
hemopoietic organ1.45e-1729
immune organ1.45e-1729
hematopoietic system1.73e-1645
blood island1.73e-1645
mixed endoderm/mesoderm-derived structure1.67e-1335
foregut2.20e-1380
respiratory tract5.54e-1141
thymus7.38e-1123
neck7.38e-1123
respiratory system epithelium7.38e-1123
hemolymphoid system gland7.38e-1123
pharyngeal epithelium7.38e-1123
thymic region7.38e-1123
pharyngeal gland7.38e-1123
entire pharyngeal arch endoderm7.38e-1123
thymus primordium7.38e-1123
early pharyngeal endoderm7.38e-1123
respiratory system1.40e-1042
pharynx3.07e-1024
gland of gut3.07e-1024
upper respiratory tract3.07e-1024
chordate pharynx3.07e-1024
pharyngeal arch system3.07e-1024
pharyngeal region of foregut3.07e-1024
digestive system6.04e-10116
digestive tract6.04e-10116
primitive gut6.04e-10116
endoderm-derived structure1.34e-09118
endoderm1.34e-09118
presumptive endoderm1.34e-09118
endo-epithelium3.04e-0969
spleen4.61e-096
cavity lining4.61e-096
serous membrane4.61e-096
gastrointestinal system mesentery4.61e-096
stomach region4.61e-096
mesentery4.61e-096
gastrointestinal system serosa4.61e-096
mesentery of stomach4.61e-096
gut mesentery4.61e-096
dorsal mesentery4.61e-096
dorsal mesogastrium4.61e-096
peritoneal cavity4.61e-096
spleen primordium4.61e-096
segment of respiratory tract1.14e-0827
subdivision of digestive tract1.46e-08114
lateral plate mesoderm7.37e-0887
intraembryonic coelom8.84e-0710
gut epithelium9.43e-0755


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)
MA0003.10.0545917
MA0004.10.434673
MA0006.10.747445
MA0007.10.419994
MA0009.13.34223
MA0014.10.0611475
MA0017.11.46217
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
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
MA0048.10.685543
MA0050.10.472794
MA0051.12.44382
MA0052.10.890676
MA0055.10.282934
MA0056.10
MA0057.10.0935008
MA0058.10.341628
MA0059.10.353484
MA0060.10.574356
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.11.18945
MA0072.10.872842
MA0073.10.000755986
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.064239
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.827743
MA0105.10.133231
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.11.18683
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.11.69575
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.506952
MA0140.11.29098
MA0141.10.869985
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.900473
MA0146.10.636109
MA0147.10.236889
MA0148.10.450593
MA0149.10.367458
MA0062.20.137653
MA0035.20.524137
MA0039.20.00752803
MA0138.20.675599
MA0002.22.2393
MA0137.20.32312
MA0104.20.18504
MA0047.20.576767
MA0112.20.2464
MA0065.20.528619
MA0150.11.89243
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.100744
MA0155.10.0804339
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.11.14982
MA0161.10
MA0162.10.230918
MA0163.10.0836563
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.21.60616
MA0079.20.0137335
MA0102.21.59466
MA0258.10.210437
MA0259.10.227035
MA0442.10
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