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MCL coexpression mm9:187: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=CL:0000084!3.46e-14!11;CL:0000827!3.46e-14!11;CL:0000838!7.64e-13!12;CL:0000542!1.05e-11!13;CL:0000051!1.05e-11!13;CL:0002031!1.25e-11!25;CL:0000791!5.75e-11!9;CL:0000789!5.75e-11!9;CL:0002420!5.75e-11!9;CL:0002419!5.75e-11!9;CL:0000790!5.75e-11!9;CL:0000988!1.08e-09!32;CL:0002032!1.08e-09!32;CL:0000037!1.08e-09!32;CL:0000566!1.08e-09!32;CL:0000837!1.08e-09!32;CL:0002242!3.73e-09!16;CL:0000624!4.76e-09!8;CL:0000738!1.66e-08!17;CL:0002087!1.66e-08!17
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!1.07e-26!29;UBERON:0005057!1.07e-26!29;UBERON:0002193!1.51e-23!48;UBERON:0002405!1.51e-23!48;UBERON:0002390!3.46e-23!45;UBERON:0003061!3.46e-23!45;UBERON:0002370!2.28e-22!23;UBERON:0000974!2.28e-22!23;UBERON:0004807!2.28e-22!23;UBERON:0005058!2.28e-22!23;UBERON:0003351!2.28e-22!23;UBERON:0009113!2.28e-22!23;UBERON:0003295!2.28e-22!23;UBERON:0009722!2.28e-22!23;UBERON:0005562!2.28e-22!23;UBERON:0007690!2.28e-22!23;UBERON:0006562!3.02e-21!24;UBERON:0003408!3.02e-21!24;UBERON:0001557!3.02e-21!24;UBERON:0001042!3.02e-21!24;UBERON:0008814!3.02e-21!24;UBERON:0009145!3.02e-21!24;UBERON:0000077!3.75e-21!35;UBERON:0000065!9.06e-19!41;UBERON:0000072!2.20e-18!27;UBERON:0001004!3.48e-18!42;UBERON:0000063!3.60e-13!35;UBERON:0007811!1.11e-12!36;UBERON:0001041!7.28e-12!80;UBERON:0003081!1.11e-10!87;UBERON:0000153!6.38e-10!43;UBERON:0005911!6.88e-09!69;UBERON:0004921!4.24e-07!114;UBERON:0003929!7.24e-07!55;UBERON:0001007!7.27e-07!116;UBERON:0001555!7.27e-07!116;UBERON:0007026!7.27e-07!116;UBERON:0002368!8.46e-07!60
|tfbs_overrepresentation_for_novel_motifs=0.0669868,0.142995,0.293892,1.44924,0.784658,0.767188,0.179652,0.219481,0.378482,0.0756126,0.0350586,0.679497,0.342283,0.19151,1.86368,0,0.134663,0.520706,0.423082,0.626544,0.896717,0.333623,0.0511582,1.35296,0.0569372,0.219395,0.941596,0.0287316,0.175282,0.135539,0.108475,0.19303,0.10026,0.594022,0.253325,0.414308,0.00155528,0.375609,0.247719,0.445379,0.35134,0.271658,0.92866,0.632583,0.150825,0.0858561,0.316552,0.131757,0.426906,0.179865,0.395761,0.530575,0.410008,0.288249,0.813811,0.0537992,0.554192,0.156773,0.490434,0.053123,0.180771,0.0744969,0.281781,0.119797,0.209838,0.140979,0.405492,0.706634,0.526757,0.575249,0.0442816,0.236035,0.00171916,0.869591,0.126635,0.105,0.780878,0.0903973,0.170529,0.408981,0.239467,0.144035,0.0739256,0.463527,0.243226,0.00815347,2.24315,0.215966,0.0976795,0.856591,0.46234,0.246609,0.201034,0.1197,0.02477,0.31827,0.332019,0.202807,0.653051,0.0240236,1.21514,0.192856,0.275794,0.396549,0.395152,0.0266301,0.157695,0.557507,0.0404797,0.00706342,0.332653,0.27706,0.922992,0.607673,0.468195,0.345992,0.00271776,0.0958846,0.420901,1.18645,0.329775,0.109468,0.481316,0.626377,0.513779,0.172714,0.050128,0.572209,0.404277,1.11485,0.729391,0.424759,0.991665,0.212418,0.486259,0.00873583,0.607687,0.813924,0.445396,1.20935,0.826797,0.40927,1.81821,1.09671,0.121984,0.50666,0.659197,1.17081,0.918904,0.114501,0.0820163,5.07356e-06,0.28938,0.115761,0.0581242,0.350203,0.53259,1.24895,0.342301,0.0154492,0.453227,0.242646,0.514609,0.0618273,0.766745,0.449116,0.0358566,0.675157,0.108911
}}

Latest revision as of 14:51, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:116355981..116355987,-p@chr10:116355981..116355987
-
Mm9::chr10:117993582..117993598,-p@chr10:117993582..117993598
-
Mm9::chr10:126587762..126587771,+p@chr10:126587762..126587771
+
Mm9::chr10:126587796..126587802,+p@chr10:126587796..126587802
+
Mm9::chr10:126758971..126758986,+p4@Arhgap9
Mm9::chr10:19214443..19214455,+p@chr10:19214443..19214455
+
Mm9::chr10:25949549..25949569,+p1@Samd3
Mm9::chr11:52113578..52113586,+p@chr11:52113578..52113586
+
Mm9::chr11:72904056..72904105,+p1@Itgae
Mm9::chr12:114668031..114668053,-p1@ENSMUST00000103430
p1@uc007pgi.1
p1@uc007pgm.1
p1@uc007pgr.1
Mm9::chr12:85518321..85518352,-p@chr12:85518321..85518352
-
Mm9::chr13:24508610..24508619,+p14@Cmah
Mm9::chr14:78304172..78304248,+p1@Epsti1
Mm9::chr14:78304255..78304260,+p4@Epsti1
Mm9::chr14:78304281..78304310,+p2@Epsti1
Mm9::chr14:78304326..78304340,+p@chr14:78304326..78304340
+
Mm9::chr15:85898136..85898174,+p3@Gramd4
Mm9::chr16:44332955..44332981,-p10@Sidt1
Mm9::chr18:56643019..56643024,+p@chr18:56643019..56643024
+
Mm9::chr18:89375950..89375965,+p@chr18:89375950..89375965
+
Mm9::chr19:5468487..5468506,-p1@Ctsw
Mm9::chr1:154932746..154932754,+p@chr1:154932746..154932754
+
Mm9::chr1:36329635..36329637,+p@chr1:36329635..36329637
+
Mm9::chr2:127143962..127143966,-p@chr2:127143962..127143966
-
Mm9::chr2:26524291..26524300,-p@chr2:26524291..26524300
-
Mm9::chr2:26524313..26524338,-p@chr2:26524313..26524338
-
Mm9::chr2:59176750..59176761,+p@chr2:59176750..59176761
+
Mm9::chr2:59176771..59176786,+p@chr2:59176771..59176786
+
Mm9::chr2:59468123..59468132,+p12@Tanc1
Mm9::chr3:103661517..103661548,+p@chr3:103661517..103661548
+
Mm9::chr3:105618448..105618473,+p1@uc008qvf.1
Mm9::chr3:115677538..115677553,+p@chr3:115677538..115677553
+
Mm9::chr4:134676555..134676575,+p2@Runx3
Mm9::chr4:144826318..144826357,+p@chr4:144826318..144826357
+
Mm9::chr4:149032034..149032054,-p@chr4:149032034..149032054
-
Mm9::chr5:114280399..114280427,-p2@Selplg
Mm9::chr5:67751606..67751616,+p@chr5:67751606..67751616
+
Mm9::chr5:67818825..67818832,-p9@Bend4
Mm9::chr5:67818913..67818930,-p4@Bend4
Mm9::chr5:74799017..74799023,+p@chr5:74799017..74799023
+
Mm9::chr6:129541731..129541741,+p2@Klrd1
Mm9::chr6:129541773..129541785,+p3@Klrd1
Mm9::chr6:129541803..129541835,+p1@Klrd1
Mm9::chr6:71302932..71302941,+p@chr6:71302932..71302941
+
Mm9::chr6:71302962..71302973,+p@chr6:71302962..71302973
+
Mm9::chr6:71302975..71302996,+p@chr6:71302975..71302996
+
Mm9::chr6:71303013..71303047,+p@chr6:71303013..71303047
+
Mm9::chr8:126797856..126797866,-p@chr8:126797856..126797866
-
Mm9::chr8:13974923..13974946,-p4@2610019F03Rik
Mm9::chr8:26179053..26179088,+p@chr8:26179053..26179088
+
Mm9::chr8:97447574..97447583,+p2@Gpr114
Mm9::chr8:97447587..97447608,+p1@Gpr114
Mm9::chr9:32311914..32311919,+p@chr9:32311914..32311919
+


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
hemopoietic organ1.07e-2629
immune organ1.07e-2629
hemolymphoid system1.51e-2348
immune system1.51e-2348
hematopoietic system3.46e-2345
blood island3.46e-2345
thymus2.28e-2223
neck2.28e-2223
respiratory system epithelium2.28e-2223
hemolymphoid system gland2.28e-2223
pharyngeal epithelium2.28e-2223
thymic region2.28e-2223
pharyngeal gland2.28e-2223
entire pharyngeal arch endoderm2.28e-2223
thymus primordium2.28e-2223
early pharyngeal endoderm2.28e-2223
pharynx3.02e-2124
gland of gut3.02e-2124
upper respiratory tract3.02e-2124
chordate pharynx3.02e-2124
pharyngeal arch system3.02e-2124
pharyngeal region of foregut3.02e-2124
mixed endoderm/mesoderm-derived structure3.75e-2135
respiratory tract9.06e-1941
segment of respiratory tract2.20e-1827
respiratory system3.48e-1842
organ segment3.60e-1335
craniocervical region1.11e-1236
foregut7.28e-1280
lateral plate mesoderm1.11e-1087
anterior region of body6.38e-1043
endo-epithelium6.88e-0969
subdivision of digestive tract4.24e-07114
gut epithelium7.24e-0755
digestive system7.27e-07116
digestive tract7.27e-07116
primitive gut7.27e-07116
endocrine gland8.46e-0760


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)
MA0003.10.00192172
MA0004.10.442864
MA0006.10.0548972
MA0007.11.79626
MA0009.11.13637
MA0014.10.000258534
MA0017.10.999651
MA0019.10.107112
MA0024.10.182403
MA0025.10.377279
MA0027.11.70006
MA0028.10.0194532
MA0029.10.505931
MA0030.10.173309
MA0031.10.152754
MA0038.10.47765
MA0040.10.217786
MA0041.10.280301
MA0042.10.443564
MA0043.10.275083
MA0046.10.233218
MA0048.10.234349
MA0050.12.69745
MA0051.10.228726
MA0052.10.223053
MA0055.10.0368656
MA0056.10
MA0057.10.0713312
MA0058.10.424583
MA0059.10.265689
MA0060.10.0462319
MA0061.10.00759449
MA0063.10
MA0066.11.20923
MA0067.10.467135
MA0068.10.00271782
MA0069.10.223276
MA0070.10.216943
MA0071.10.121482
MA0072.10.211463
MA0073.11.45448
MA0074.10.693044
MA0076.10.350641
MA0077.10.19771
MA0078.10.0767113
MA0081.10.310898
MA0083.11.38094
MA0084.11.78593
MA0087.11.26979
MA0088.10.179543
MA0089.10
MA0090.10.0718418
MA0091.10.0239863
MA0092.10.366238
MA0093.10.462646
MA0095.10
MA0098.10
MA0100.10.0419772
MA0101.10.0503691
MA0103.11.3946
MA0105.10.00314077
MA0106.10.0798764
MA0107.10.025393
MA0108.20.37698
MA0109.10
MA0111.10.653129
MA0113.10.519724
MA0114.10.250073
MA0115.10.277068
MA0116.10.242162
MA0117.10.254481
MA0119.10.486713
MA0122.10.268294
MA0124.10.423432
MA0125.10.364629
MA0130.10
MA0131.10.341987
MA0132.10
MA0133.10
MA0135.10.301301
MA0136.14.01405
MA0139.10.0625056
MA0140.10.370139
MA0141.10.214144
MA0142.10.444528
MA0143.10.260371
MA0144.10.407365
MA0145.10.217813
MA0146.10.234314
MA0147.10.168314
MA0148.10.481517
MA0149.10.0107257
MA0062.21.00325
MA0035.21.0444
MA0039.20.000660751
MA0138.20.679738
MA0002.21.13606
MA0137.20.0974346
MA0104.20.154279
MA0047.20.0605166
MA0112.21.25696
MA0065.20.418939
MA0150.10.0836205
MA0151.10
MA0152.10.218626
MA0153.10.313537
MA0154.10.146402
MA0155.10.0456472
MA0156.15.40717
MA0157.10.79897
MA0158.10
MA0159.10.0948852
MA0160.10.488813
MA0161.10
MA0162.10.000296267
MA0163.10.0192634
MA0164.10.427482
MA0080.26.41156
MA0018.20.201991
MA0099.20.666109
MA0079.20.0180924
MA0102.20.804421
MA0258.11.87403
MA0259.10.0733502
MA0442.10
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