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MCL coexpression mm9:522: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.233616735658763,0.0358417505761051,0.0632673906155889,0,0,0.258437383884738,0.204779780189866,0.166837805796681,0.18361252757966,0.100473408670458,0.564933806225722,0.556031169460204,0.489864915928508,0.0682179984609265,0.554813854726354,0.525148260804501,0.0322275761868389,0.0767250434462575,0,0,0,0,0,0,0,0,0,0,0,0,0.860499853117493,0.723048380607442,0.755094815467952,0.912055887255056,0.869791337076417,0.733766343997187,0,0,0,0,0,0,0,0,0,0.419086315846148,0.236880264493592,0.242910216082238,0,0,0,0,0,0,0,0,0.220041831042691,0.0526128886814475,0.308552842430081,0.0147296447473418,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00455838275756257,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0.00482479358304415,0.447254233269189,0,0,0,0,0,0,0,0,0,0.438295906856964,0.0512517668920606,0.197334897567131,0.202353650249852,0,0,0,0,0.809965992367061,0.565944387340081,0.688017175696666,0,0,0,0,0,0,0,0,0.299152726592288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.580794183103832,0.583292537239402,0.61550801293365,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0245300289657605,0.0501022884275334,0,0,0,0,0,0,0,0,0,0,0,0,0.00832462844592755,0.06996654627812,0.0386774267005042,0,0,0.0116628012299,0,0,0,0,0,0,0,0,0,0,0,0.125054963696189,0.0972400303973293,0.0880872011895838,0.0401075634450079,0.093833775061694,0.0912318875498512,0.11591065983195,0.241943574842345,0.140979980529501,0.0802366800825865,0.0886303694700053,0.0167979275981364,0,0,0,0.10509597335063,0,0,0,0,0.0441963464760137,0.0887487709821336,0.0774164737207147,0.0912933562119048,0.0338543629294384,0.00068028749394139,0.17364944681578,0.0691813633419548,0.110353348438991,0.450829985231551,0.188620766046218,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0655375003561515,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0245667229250508,0,0,0.0662835200988411,0,0,0,0,0.1029573390142,0,0.282293439165415,0.209289928385081,0.164368616077759,0.251158987269336,0.240324775897893,0.353219918604735,0.852908181908771,0.906332772836518,0.797466031918777,0,0,0,0,0.020627118726277,0,0.00638720128609111,0.034489466458534,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.251161231671067,0.238761525917196,0.306877224310225,0.295201312653381,0.255885193285684,0.242988694677037,0.290486954814254,0.266804156533878,0.300172833017664,0.338630308938853,0.184409832148726,0.302024765243617,0.313515058346122,0.285890721372919,0,0,0,0,0,0.0747003483965965,0,0.0843504501108034,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00140421656681815,0,0,0,0,0,0.0388749848471105,0.0208129353038022,0.00273175600157844,0,0,0,0,0.011285716876975,0,0,0.0273651877324785,0,0.0201482420101528,0.0245842221112373,0,0,0.0458935985460599,0,0.0239394147669959,0,0,0,0.0383032227056179,0,0,0,0,0.0865703124974023,0.0905641158318875
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000988!1.24e-12!32;CL:0002032!1.24e-12!32;CL:0000037!1.24e-12!32;CL:0000566!1.24e-12!32;CL:0000837!1.24e-12!32;CL:0002320!3.65e-09!46;CL:0000134!3.65e-09!46;CL:0000049!1.00e-08!19;CL:0002031!1.77e-08!25
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!7.31e-24!48;UBERON:0002405!7.31e-24!48;UBERON:0002390!3.07e-22!45;UBERON:0003061!3.07e-22!45;UBERON:0004177!1.11e-12!29;UBERON:0005057!1.11e-12!29;UBERON:0000077!1.44e-11!35;UBERON:0001041!2.50e-11!80;UBERON:0001474!7.73e-11!22;UBERON:0004765!7.73e-11!22;UBERON:0001434!7.73e-11!22;UBERON:0002371!2.51e-10!16;UBERON:0003081!2.66e-10!87;UBERON:0002384!3.65e-09!46;UBERON:0002370!6.65e-09!23;UBERON:0000974!6.65e-09!23;UBERON:0004807!6.65e-09!23;UBERON:0005058!6.65e-09!23;UBERON:0003351!6.65e-09!23;UBERON:0009113!6.65e-09!23;UBERON:0003295!6.65e-09!23;UBERON:0009722!6.65e-09!23;UBERON:0005562!6.65e-09!23;UBERON:0007690!6.65e-09!23;UBERON:0002204!7.23e-09!32;UBERON:0000065!1.27e-08!41;UBERON:0006562!2.78e-08!24;UBERON:0003408!2.78e-08!24;UBERON:0001557!2.78e-08!24;UBERON:0001042!2.78e-08!24;UBERON:0008814!2.78e-08!24;UBERON:0009145!2.78e-08!24;UBERON:0005911!2.86e-08!69;UBERON:0001004!3.23e-08!42;UBERON:0000926!3.63e-07!120;UBERON:0004120!3.63e-07!120;UBERON:0006603!3.63e-07!120;UBERON:0004119!7.83e-07!118;UBERON:0000925!7.83e-07!118;UBERON:0006595!7.83e-07!118;UBERON:0001007!8.40e-07!116;UBERON:0001555!8.40e-07!116;UBERON:0007026!8.40e-07!116
}}

Latest revision as of 15:27, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80987126..80987135,-p10@Gna15
Mm9::chr13:74075570..74075595,+p@chr13:74075570..74075595
+
Mm9::chr15:84155210..84155241,+p2@Parvg
Mm9::chr16:92826167..92826176,-p@chr16:92826167..92826176
-
Mm9::chr16:92826180..92826191,-p5@Runx1
Mm9::chr16:92826232..92826245,-p4@Runx1
Mm9::chr17:48438853..48438867,+p5@Treml2
Mm9::chr17:48439797..48439804,+p9@Treml2
Mm9::chr17:48439824..48439849,+p4@Treml2
Mm9::chr18:65961097..65961123,+p3@Sec11c
Mm9::chr19:5877794..5877840,+p3@Slc25a45
Mm9::chr2:112108160..112108174,-p@chr2:112108160..112108174
-
Mm9::chr6:113187870..113187901,+p2@Mtmr14
Mm9::chrY:622960..622991,-p2@Ddx3y


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 system7.31e-2448
immune system7.31e-2448
hematopoietic system3.07e-2245
blood island3.07e-2245
hemopoietic organ1.11e-1229
immune organ1.11e-1229
mixed endoderm/mesoderm-derived structure1.44e-1135
foregut2.50e-1180
bone element7.73e-1122
skeletal element7.73e-1122
skeletal system7.73e-1122
bone marrow2.51e-1016
lateral plate mesoderm2.66e-1087
connective tissue3.65e-0946
thymus6.65e-0923
neck6.65e-0923
respiratory system epithelium6.65e-0923
hemolymphoid system gland6.65e-0923
pharyngeal epithelium6.65e-0923
thymic region6.65e-0923
pharyngeal gland6.65e-0923
entire pharyngeal arch endoderm6.65e-0923
thymus primordium6.65e-0923
early pharyngeal endoderm6.65e-0923
musculoskeletal system7.23e-0932
respiratory tract1.27e-0841
pharynx2.78e-0824
gland of gut2.78e-0824
upper respiratory tract2.78e-0824
chordate pharynx2.78e-0824
pharyngeal arch system2.78e-0824
pharyngeal region of foregut2.78e-0824
endo-epithelium2.86e-0869
respiratory system3.23e-0842
mesoderm3.63e-07120
mesoderm-derived structure3.63e-07120
presumptive mesoderm3.63e-07120
endoderm-derived structure7.83e-07118
endoderm7.83e-07118
presumptive endoderm7.83e-07118
digestive system8.40e-07116
digestive tract8.40e-07116
primitive gut8.40e-07116


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)
MA0003.10.106286
MA0004.10.717031
MA0006.10.1319
MA0007.10.246385
MA0009.10.649874
MA0014.10.023905
MA0017.10.458117
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.11.37032
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.992094
MA0040.11.59033
MA0041.11.09418
MA0042.10.553522
MA0043.10.74191
MA0046.10.683926
MA0048.10.289404
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.12.82199
MA0056.10
MA0057.10.107353
MA0058.12.32536
MA0059.10.19314
MA0060.10.586951
MA0061.10.671982
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.12.07102
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.10.0195439
MA0074.10.340281
MA0076.11.51892
MA0077.10.632005
MA0078.10.418168
MA0081.10.605506
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0649199
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.11.40523
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.199903
MA0103.10.927638
MA0105.10.385363
MA0106.10.425111
MA0107.10.46624
MA0108.20.50131
MA0109.10
MA0111.10.242308
MA0113.11.03368
MA0114.10.323836
MA0115.10.744589
MA0116.10.131762
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.940193
MA0139.10.0649474
MA0140.10.330266
MA0141.10.171891
MA0142.10.547747
MA0143.10.414534
MA0144.10.100037
MA0145.10.370377
MA0146.10.0343188
MA0147.10.107632
MA0148.10.271704
MA0149.10.204102
MA0062.20.706083
MA0035.20.33429
MA0039.20.439375
MA0138.21.18323
MA0002.23.69985
MA0137.20.169785
MA0104.20.0740839
MA0047.20.380343
MA0112.20.189423
MA0065.20.371748
MA0150.11.27615
MA0151.10
MA0152.10.380437
MA0153.11.86197
MA0154.10.283993
MA0155.10.69113
MA0156.10.949678
MA0157.10.518122
MA0158.10
MA0159.11.76942
MA0160.10.274172
MA0161.10
MA0162.10.108524
MA0163.10.70702
MA0164.10.357779
MA0080.21.46165
MA0018.20.366212
MA0099.20.463355
MA0079.20.357641
MA0102.21.35579
MA0258.10.0900907
MA0259.10.101001
MA0442.10
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