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MCL coexpression mm9:275: Difference between revisions

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{{MCL_coexpression_mm9
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sulfotransferase activity;1.01970369145907e-05;20859,100043194!GO:0008202;steroid metabolic process;1.01970369145907e-05;20859,68177,100043194,116852!GO:0044255;cellular lipid metabolic process;0.00112166069657045;20859,68177,100043194,116852!GO:0006629;lipid metabolic process;0.00145471540746546;20859,68177,100043194,116852!GO:0008146;sulfotransferase activity;0.00283600980326611;20859,100043194!GO:0016782;transferase activity, transferring sulfur-containing groups;0.00318037821664022;20859,100043194!GO:0047750;cholestenol delta-isomerase activity;0.0112680018617504;68177!GO:0008514;organic anion transmembrane transporter 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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.269611904680974,0,0.252688191418675,0.343574174821928,0.36997255194985,0.130103680446068,0,0,0,0,0,0,0,0,0,0,0.268461186719096,0,0,0,0,0,0,0,0.0514097768499148,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.485841438481363,0,0,0,0,0,0,0,0.0652566657696677,0.260949644910126,0.58831251521849,0.554577248846304,0.703849131262116,1.11773717725283,0.804779865005798,0.84467599993788,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.066440322267935,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0047704;bile-salt sulfotransferase activity;1.01970369145907e-05;20859,100043194!GO:0008202;steroid metabolic process;1.01970369145907e-05;20859,68177,100043194,116852!GO:0044255;cellular lipid metabolic process;0.00112166069657045;20859,68177,100043194,116852!GO:0006629;lipid metabolic process;0.00145471540746546;20859,68177,100043194,116852!GO:0008146;sulfotransferase activity;0.00283600980326611;20859,100043194!GO:0016782;transferase activity, transferring sulfur-containing groups;0.00318037821664022;20859,100043194!GO:0047750;cholestenol delta-isomerase activity;0.0112680018617504;68177!GO:0008514;organic anion transmembrane transporter activity;0.0344751846259603;28250!
|ontology_enrichment_celltype=CL:0000181!6.21e-10!5;CL:0000417!6.21e-10!5;CL:0000668!6.21e-10!5;CL:0000412!6.21e-10!5;CL:0000182!6.21e-10!5
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!4.84e-39!22;UBERON:0007499!4.84e-39!22;UBERON:0006925!4.84e-39!22;UBERON:0009497!4.84e-39!22;UBERON:0000015!4.84e-39!22;UBERON:0002423!4.84e-39!22;UBERON:0006235!4.84e-39!22;UBERON:0008835!4.84e-39!22;UBERON:0003894!4.84e-39!22;UBERON:0004161!4.84e-39!22;UBERON:0008836!4.84e-39!22;UBERON:0009854!2.84e-37!23;UBERON:0009856!2.84e-37!23;UBERON:0002365!3.67e-34!25;UBERON:0002330!3.67e-34!25;UBERON:0005256!3.78e-21!45;UBERON:0005172!2.86e-19!49;UBERON:0005173!2.86e-19!49;UBERON:0002417!2.86e-19!49;UBERON:0000916!2.86e-19!49;UBERON:0003914!2.31e-17!47;UBERON:0002368!2.18e-15!60;UBERON:0003104!4.18e-15!61;UBERON:0009142!4.18e-15!61;UBERON:0003929!1.42e-14!55;UBERON:0002530!4.68e-14!65;UBERON:0009569!8.19e-14!66;UBERON:0000949!1.69e-12!72;UBERON:0000490!7.76e-12!66;UBERON:0005911!3.06e-11!69;UBERON:0005177!3.25e-11!79;UBERON:0001041!4.57e-11!80;UBERON:0002100!1.35e-09!90;UBERON:0000466!1.41e-09!79;UBERON:0004921!3.78e-07!114;UBERON:0001007!5.46e-07!116;UBERON:0001555!5.46e-07!116;UBERON:0007026!5.46e-07!116;UBERON:0004119!7.80e-07!118;UBERON:0000925!7.80e-07!118;UBERON:0006595!7.80e-07!118
|tfbs_overrepresentation_for_novel_motifs=0.23755,0.0536076,0.207166,0.605195,0.455666,0.638497,0.141047,0.616403,0.115868,0.115736,0.116463,0.417744,0.0362888,0.148257,1.16908,0,0.278333,0.434114,0.192652,0.0574621,0.167323,0.316516,0.147721,0.451452,0.0595863,0.164963,0.321575,0.102932,0.137229,0.105468,0.0958789,0.937786,0.428072,0.14205,0.0265392,0.0143298,0.209159,0.132062,0.873102,0.136039,1.90189,0.324583,0.0197424,1.17962,0.0417752,0.275593,0.22117,0.111088,0.29577,0.0350175,0.265451,0.181937,0.095762,0.473629,0.488593,0.152527,0.970053,0.399341,0.295239,0.151304,0.340494,0.18804,0.130512,0.257242,0.159274,0.287117,0.608645,0.933761,0.894363,0.794446,0.0497287,0.643127,0.010253,0.517629,0.0654223,0.246078,0.141928,0.213375,0.872547,0.171714,1.26044,0.291331,0.548924,0.209469,0.419339,0.00260651,0.359786,0.346829,0.224557,1.0899,0.671836,0.423481,0.366627,0.471953,0.0135429,0.503507,0.101959,0.368885,0.221346,0.0303937,0.0823665,0.356153,0.458781,0.734085,0.265114,0.0982201,0.309919,0.715548,0.0466454,0.0441751,0.495806,0.460295,0.172898,0.119253,0.678281,0.715266,0.0178928,0.0874099,0.279301,0.0795865,1.29705,0.67935,0.166093,0.610275,0.728107,0.329926,0.447358,0.361192,1.47645,0.480235,0.444416,0.0822682,0.580825,0.160813,1.66605,0.452062,0.529534,0.099143,0.653122,1.45055,1.05907,0.612882,0.516217,0.364752,0.721437,0.32519,0.223324,1.41144,0.911693,0.0988,0.013579,0.00135566,0.474971,0.153557,0.938112,0.545909,0.182585,0.0295213,0.505758,0.0704805,0.661783,0.418628,0.330273,0.063259,0.257983,0.155734,0.20739,0.415443,0.00144436
|tfbs_overrepresentation_jaspar=MA0003.1;0.000218273,MA0004.1;0.0858689,MA0006.1;0.0253297,MA0007.1;0.572315,MA0009.1;0.377631,MA0014.1;1.05053e-05,MA0017.1;1.28624,MA0019.1;0.671243,MA0024.1;0.342622,MA0025.1;0.57681,MA0027.1;1.94532,MA0028.1;0.0279413,MA0029.1;0.325591,MA0030.1;0.880745,MA0031.1;0.303242,MA0038.1;1.52625,MA0040.1;0.387805,MA0041.1;1.17584,MA0042.1;0.184959,MA0043.1;0.457929,MA0046.1;1.04898,MA0048.1;0.0310795,MA0050.1;0.341753,MA0051.1;0.170484,MA0052.1;0.394392,MA0055.1;0.000899164,MA0056.1;0,MA0057.1;0.0247426,MA0058.1;0.0469235,MA0059.1;0.0512607,MA0060.1;0.010101,MA0061.1;0.0147885,MA0063.1;0,MA0066.1;0.158169,MA0067.1;0.677115,MA0068.1;0.141977,MA0069.1;1.02202,MA0070.1;0.386747,MA0071.1;0.694637,MA0072.1;0.379853,MA0073.1;0.0433747,MA0074.1;0.136938,MA0076.1;0.0378904,MA0077.1;0.951059,MA0078.1;1.06544,MA0081.1;0.473128,MA0083.1;0.457256,MA0084.1;0.985399,MA0087.1;0.421024,MA0088.1;0.0637144,MA0089.1;0,MA0090.1;0.903858,MA0091.1;0.636516,MA0092.1;0.904894,MA0093.1;0.0301253,MA0095.1;0,MA0098.1;0,MA0100.1;0.130363,MA0101.1;0.0545406,MA0103.1;0.141239,MA0105.1;0.00296084,MA0106.1;0.196768,MA0107.1;0.0335995,MA0108.2;0.255046,MA0109.1;0,MA0111.1;0.560888,MA0113.1;1.01256,MA0114.1;1.2247,MA0115.1;1.16437,MA0116.1;0.107342,MA0117.1;0.433078,MA0119.1;1.18399,MA0122.1;0.449781,MA0124.1;0.628716,MA0125.1;1.38199,MA0130.1;0,MA0131.1;0.235509,MA0132.1;0,MA0133.1;0,MA0135.1;0.489063,MA0136.1;0.148556,MA0139.1;0.00636665,MA0140.1;0.130298,MA0141.1;0.367234,MA0142.1;1.44562,MA0143.1;0.188991,MA0144.1;0.0696572,MA0145.1;0.243966,MA0146.1;0.0027874,MA0147.1;0.017186,MA0148.1;1.07318,MA0149.1;2.82551,MA0062.2;0.0197237,MA0035.2;0.414785,MA0039.2;1.71662e-05,MA0138.2;0.229939,MA0002.2;0.612056,MA0137.2;0.040538,MA0104.2;0.00827606,MA0047.2;0.955441,MA0112.2;0.53956,MA0065.2;0.0341518,MA0150.1;0.967341,MA0151.1;0,MA0152.1;0.493821,MA0153.1;0.503426,MA0154.1;0.0756214,MA0155.1;0.00426258,MA0156.1;0.0376253,MA0157.1;0.26838,MA0158.1;0,MA0159.1;0.216399,MA0160.1;0.650661,MA0161.1;0,MA0162.1;0.00036638,MA0163.1;0.00358873,MA0164.1;0.148771,MA0080.2;0.136228,MA0018.2;0.469233,MA0099.2;0.640449,MA0079.2;3.23976e-08,MA0102.2;1.03585,MA0258.1;0.811463,MA0259.1;0.0151996,MA0442.1;0
}}

Latest revision as of 15:00, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:121824059..121824072,+p@chr10:121824059..121824072
+
Mm9::chr10:121886442..121886451,+p@chr10:121886442..121886451
+
Mm9::chr10:74515728..74515751,-p@chr10:74515728..74515751
-
Mm9::chr11:101544171..101544183,+p@chr11:101544171..101544183
+
Mm9::chr13:4522568..4522601,-p1@Akr1c20
Mm9::chr14:61979211..61979222,-p@chr14:61979211..61979222
-
Mm9::chr15:91021416..91021425,-p@chr15:91021416..91021425
-
Mm9::chr15:99540899..99540911,+p@chr15:99540899..99540911
+
Mm9::chr18:21119743..21119750,+p11@Rnf125
Mm9::chr19:8040499..8040527,-p1@Slc22a27
Mm9::chr19:8337092..8337139,-p2@Slc22a29
Mm9::chr1:138589429..138589436,+p@chr1:138589429..138589436
+
Mm9::chr1:60653502..60653505,+p@chr1:60653502..60653505
+
Mm9::chr5:146890743..146890764,+p2@Cyp3a59
Mm9::chr5:90879180..90879184,-p@chr5:90879180..90879184
-
Mm9::chr6:141804045..141804091,-p@chr6:141804045..141804091
-
Mm9::chr6:141804713..141804755,-p1@Slco1a4
Mm9::chr6:90502198..90502200,+p@chr6:90502198..90502200
+
Mm9::chr7:14209322..14209331,+p2@Sult2a5
Mm9::chr7:14209332..14209350,+p1@Sult2a5
Mm9::chr7:14318851..14318853,+p1@Sult2a2
Mm9::chr7:14422759..14422760,-p1@Sult2a1
Mm9::chr7:14708391..14708402,-p1@Sult2a3
Mm9::chr7:14708421..14708424,-p2@Sult2a3
Mm9::chr7:27724396..27724409,-p1@Cyp2a22
Mm9::chr8:121952828..121952837,-p@chr8:121952828..121952837
-
Mm9::chr8:37795154..37795170,-p@chr8:37795154..37795170
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Mm9::chr8:66307042..66307053,-p@chr8:66307042..66307053
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Mm9::chr8:72596930..72596939,+p@chr8:72596930..72596939
+
Mm9::chr9:48148765..48148768,-p10@Fam55b


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

GO IDGO nameFDR corrected p-value
GO:0047704bile-salt sulfotransferase activity1.01970369145907e-05
GO:0008202steroid metabolic process1.01970369145907e-05
GO:0044255cellular lipid metabolic process0.00112166069657045
GO:0006629lipid metabolic process0.00145471540746546
GO:0008146sulfotransferase activity0.00283600980326611
GO:0016782transferase activity, transferring sulfur-containing groups0.00318037821664022
GO:0047750cholestenol delta-isomerase activity0.0112680018617504
GO:0008514organic anion transmembrane transporter activity0.0344751846259603



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 cell6.21e-105
endopolyploid cell6.21e-105
parenchymal cell6.21e-105
polyploid cell6.21e-105
hepatocyte6.21e-105

Uber Anatomy
Ontology termp-valuen
liver4.84e-3922
epithelial sac4.84e-3922
digestive gland4.84e-3922
epithelium of foregut-midgut junction4.84e-3922
anatomical boundary4.84e-3922
hepatobiliary system4.84e-3922
foregut-midgut junction4.84e-3922
hepatic diverticulum4.84e-3922
liver primordium4.84e-3922
septum transversum4.84e-3922
liver bud4.84e-3922
digestive tract diverticulum2.84e-3723
sac2.84e-3723
exocrine gland3.67e-3425
exocrine system3.67e-3425
trunk mesenchyme3.78e-2145
abdomen element2.86e-1949
abdominal segment element2.86e-1949
abdominal segment of trunk2.86e-1949
abdomen2.86e-1949
epithelial tube2.31e-1747
endocrine gland2.18e-1560
mesenchyme4.18e-1561
entire embryonic mesenchyme4.18e-1561
gut epithelium1.42e-1455
gland4.68e-1465
subdivision of trunk8.19e-1466
endocrine system1.69e-1272
unilaminar epithelium7.76e-1266
endo-epithelium3.06e-1169
trunk region element3.25e-1179
foregut4.57e-1180
trunk1.35e-0990
immaterial anatomical entity1.41e-0979
subdivision of digestive tract3.78e-07114
digestive system5.46e-07116
digestive tract5.46e-07116
primitive gut5.46e-07116
endoderm-derived structure7.80e-07118
endoderm7.80e-07118
presumptive endoderm7.80e-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)
MA0003.10.000218273
MA0004.10.0858689
MA0006.10.0253297
MA0007.10.572315
MA0009.10.377631
MA0014.11.05053e-05
MA0017.11.28624
MA0019.10.671243
MA0024.10.342622
MA0025.10.57681
MA0027.11.94532
MA0028.10.0279413
MA0029.10.325591
MA0030.10.880745
MA0031.10.303242
MA0038.11.52625
MA0040.10.387805
MA0041.11.17584
MA0042.10.184959
MA0043.10.457929
MA0046.11.04898
MA0048.10.0310795
MA0050.10.341753
MA0051.10.170484
MA0052.10.394392
MA0055.10.000899164
MA0056.10
MA0057.10.0247426
MA0058.10.0469235
MA0059.10.0512607
MA0060.10.010101
MA0061.10.0147885
MA0063.10
MA0066.10.158169
MA0067.10.677115
MA0068.10.141977
MA0069.11.02202
MA0070.10.386747
MA0071.10.694637
MA0072.10.379853
MA0073.10.0433747
MA0074.10.136938
MA0076.10.0378904
MA0077.10.951059
MA0078.11.06544
MA0081.10.473128
MA0083.10.457256
MA0084.10.985399
MA0087.10.421024
MA0088.10.0637144
MA0089.10
MA0090.10.903858
MA0091.10.636516
MA0092.10.904894
MA0093.10.0301253
MA0095.10
MA0098.10
MA0100.10.130363
MA0101.10.0545406
MA0103.10.141239
MA0105.10.00296084
MA0106.10.196768
MA0107.10.0335995
MA0108.20.255046
MA0109.10
MA0111.10.560888
MA0113.11.01256
MA0114.11.2247
MA0115.11.16437
MA0116.10.107342
MA0117.10.433078
MA0119.11.18399
MA0122.10.449781
MA0124.10.628716
MA0125.11.38199
MA0130.10
MA0131.10.235509
MA0132.10
MA0133.10
MA0135.10.489063
MA0136.10.148556
MA0139.10.00636665
MA0140.10.130298
MA0141.10.367234
MA0142.11.44562
MA0143.10.188991
MA0144.10.0696572
MA0145.10.243966
MA0146.10.0027874
MA0147.10.017186
MA0148.11.07318
MA0149.12.82551
MA0062.20.0197237
MA0035.20.414785
MA0039.21.71662e-05
MA0138.20.229939
MA0002.20.612056
MA0137.20.040538
MA0104.20.00827606
MA0047.20.955441
MA0112.20.53956
MA0065.20.0341518
MA0150.10.967341
MA0151.10
MA0152.10.493821
MA0153.10.503426
MA0154.10.0756214
MA0155.10.00426258
MA0156.10.0376253
MA0157.10.26838
MA0158.10
MA0159.10.216399
MA0160.10.650661
MA0161.10
MA0162.10.00036638
MA0163.10.00358873
MA0164.10.148771
MA0080.20.136228
MA0018.20.469233
MA0099.20.640449
MA0079.23.23976e-08
MA0102.21.03585
MA0258.10.811463
MA0259.10.0151996
MA0442.10
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