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MCL coexpression mm9:655: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0001607;neuromedin U receptor activity;0.00657408166816525;216749!GO:0042924;neuromedin U binding;0.00657408166816525;216749!GO:0001533;cornified envelope;0.0244772157503047;20760!GO:0007566;embryo implantation;0.0244772157503047;20760!GO:0030216;keratinocyte differentiation;0.0244772157503047;20760!GO:0031424;keratinization;0.0244772157503047;20760!GO:0009913;epidermal cell differentiation;0.0244772157503047;20760!GO:0042923;neuropeptide binding;0.0244772157503047;216749!GO:0008188;neuropeptide receptor activity;0.0244772157503047;216749!GO:0042698;menstrual cycle;0.0244772157503047;20760!GO:0007565;female pregnancy;0.0244772157503047;20760!GO:0048730;epidermis morphogenesis;0.0268096031911463;20760!GO:0032504;multicellular organism reproduction;0.0303963336594432;20760!GO:0048609;reproductive process in a multicellular organism;0.0303963336594432;20760!GO:0048729;tissue morphogenesis;0.0303963336594432;20760!GO:0007218;neuropeptide signaling pathway;0.0303963336594432;216749!GO:0030594;neurotransmitter receptor activity;0.0303963336594432;216749!GO:0042165;neurotransmitter binding;0.0303963336594432;216749!GO:0008544;epidermis development;0.0303963336594432;20760!GO:0007398;ectoderm development;0.0303963336594432;20760!GO:0001653;peptide receptor activity;0.0303963336594432;216749!GO:0008528;peptide receptor activity, G-protein coupled;0.0303963336594432;216749!GO:0042277;peptide binding;0.0370275566252879;216749!}}
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U receptor activity;0.00657408166816525;216749!GO:0042924;neuromedin U binding;0.00657408166816525;216749!GO:0001533;cornified envelope;0.0244772157503047;20760!GO:0007566;embryo implantation;0.0244772157503047;20760!GO:0030216;keratinocyte differentiation;0.0244772157503047;20760!GO:0031424;keratinization;0.0244772157503047;20760!GO:0009913;epidermal cell differentiation;0.0244772157503047;20760!GO:0042923;neuropeptide binding;0.0244772157503047;216749!GO:0008188;neuropeptide receptor activity;0.0244772157503047;216749!GO:0042698;menstrual cycle;0.0244772157503047;20760!GO:0007565;female pregnancy;0.0244772157503047;20760!GO:0048730;epidermis morphogenesis;0.0268096031911463;20760!GO:0032504;multicellular organism reproduction;0.0303963336594432;20760!GO:0048609;reproductive process in a multicellular organism;0.0303963336594432;20760!GO:0048729;tissue morphogenesis;0.0303963336594432;20760!GO:0007218;neuropeptide signaling pathway;0.0303963336594432;216749!GO:0030594;neurotransmitter receptor activity;0.0303963336594432;216749!GO:0042165;neurotransmitter binding;0.0303963336594432;216749!GO:0008544;epidermis development;0.0303963336594432;20760!GO:0007398;ectoderm development;0.0303963336594432;20760!GO:0001653;peptide receptor activity;0.0303963336594432;216749!GO:0008528;peptide receptor activity, G-protein coupled;0.0303963336594432;216749!GO:0042277;peptide binding;0.0370275566252879;216749!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0000474!1.37e-27!9;UBERON:0003100!1.24e-22!11;UBERON:0003134!3.00e-20!8;UBERON:0003975!1.54e-18!5;UBERON:0000996!2.31e-11!1;UBERON:0000993!4.58e-11!1;UBERON:0006834!5.74e-11!1;UBERON:0001723!7.19e-11!1;UBERON:0001033!7.19e-11!1;UBERON:0010056!7.19e-11!1;UBERON:0005795!7.23e-11!4;UBERON:0000995!7.23e-11!4;UBERON:0004175!1.33e-10!9;UBERON:0005156!1.09e-09!26;UBERON:0000990!1.09e-09!26;UBERON:0000161!8.42e-09!5;UBERON:0003133!5.42e-07!24;UBERON:0007023!6.56e-07!51|tfbs_overrepresentation_for_novel_motifs=0.29262,0.140695,0.269904,0.878892,0.52369,0.907763,0.425757,0.702429,0.362206,0.081847,0.385334,0.414631,0.703175,0.437133,1.05871,0,0.619876,0.508485,0.656134,0.387499,0.670854,0.521547,0.436294,0.175485,0.276437,0.4628,0.304017,0.361771,1.15025,0.860082,0.349031,0.717576,0.168723,0.570676,0.19035,0.168684,0.161521,0.411296,2.02661,0.123934,0.173534,0.353696,1.12562,0.559697,0.812209,0.319944,0.543674,0.376103,0.660525,0.215702,0.603113,0.488021,0.829247,0.855661,0.87275,0.443782,0.634658,0.40287,0.60268,0.441884,0.698157,0.496904,0.383763,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,0.720972,0.0307733,0.905636,0.0810502,0.258161,0.570456,0.532872,0.681539,0.242107,0.724739,0.636582,0.495545,0.333618,0.792744,0.00855221,0.0106044,0.231893,0.548334,1.51408,1.07554,0.797601,0.730003,0.535058,0.141946,0.805383,1.14799,0.732731,0.543917,2.75802,2.15693,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,1.26399,0.390066,1.0825,1.56826,0.0643992,0.333247,0.621127,0.931584,0.910937,0.572279,0.464505,1.3176,1.13603,0.685116,0.433317,0.723425,1.00525,0.540802,0.821997,0.323373,0.976125,0.456508,1.10385,0.0275241,1.47367,0.35497,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.354106,0.546641,1.84176,0.302077,0.178088,0.235808,0.0240729,0.857198,0.133365,0.455644,0.93735,0.488969,1.09705,1.43917,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,1.13944,0.484323,0.413167,0.148813|tfbs_overrepresentation_jaspar=MA0003.1;0.0132247,MA0004.1;0.330313,MA0006.1;0.186435,MA0007.1;0.850001,MA0009.1;0.743257,MA0014.1;0.00333639,MA0017.1;0.207884,MA0019.1;0.567591,MA0024.1;0.70077,MA0025.1;0.971686,MA0027.1;2.37948,MA0028.1;0.194782,MA0029.1;0.679737,MA0030.1;0.686088,MA0031.1;0.651724,MA0038.1;0.462726,MA0040.1;0.755433,MA0041.1;0.263922,MA0042.1;0.252679,MA0043.1;0.837621,MA0046.1;0.778239,MA0048.1;0.054097,MA0050.1;0.365212,MA0051.1;0.471092,MA0052.1;0.76328,MA0055.1;0.0098576,MA0056.1;0,MA0057.1;0.048013,MA0058.1;0.246908,MA0059.1;0.257372,MA0060.1;0.12537,MA0061.1;0.451296,MA0063.1;0,MA0066.1;1.1475,MA0067.1;1.08124,MA0068.1;0.0500842,MA0069.1;3.00902,MA0070.1;0.75417,MA0071.1;0.364454,MA0072.1;0.745922,MA0073.1;0.000134849,MA0074.1;1.07546,MA0076.1;0.223625,MA0077.1;0.724865,MA0078.1;0.502121,MA0081.1;0.277253,MA0083.1;0.836845,MA0084.1;1.4063,MA0087.1;0.794721,MA0088.1;0.28966,MA0089.1;0,MA0090.1;0.811744,MA0091.1;0.342071,MA0092.1;0.300264,MA0093.1;0.20148,MA0095.1;0,MA0098.1;0,MA0100.1;0.408523,MA0101.1;0.265031,MA0103.1;0.619698,MA0105.1;0.26272,MA0106.1;0.509454,MA0107.1;0.211681,MA0108.2;0.589413,MA0109.1;0,MA0111.1;1.51846,MA0113.1;0.482899,MA0114.1;0.145642,MA0115.1;0.84036,MA0116.1;0.186271,MA0117.1;0.808813,MA0119.1;0.265536,MA0122.1;0.828211,MA0124.1;1.02871,MA0125.1;0.955734,MA0130.1;0,MA0131.1;0.563262,MA0132.1;0,MA0133.1;0,MA0135.1;0.873285,MA0136.1;0.437601,MA0139.1;0.103495,MA0140.1;0.408417,MA0141.1;0.233109,MA0142.1;0.63775,MA0143.1;0.49828,MA0144.1;1.4253,MA0145.1;0.3137,MA0146.1;0.0833862,MA0147.1;0.157258,MA0148.1;0.344843,MA0149.1;0.269772,MA0062.2;0.271822,MA0035.2;0.412747,MA0039.2;0.00487869,MA0138.2;0.555696,MA0002.2;1.15479,MA0137.2;0.652494,MA0104.2;0.11535,MA0047.2;0.46201,MA0112.2;0.9035,MA0065.2;0.133827,MA0150.1;0.316876,MA0151.1;0,MA0152.1;0.46211,MA0153.1;0.889592,MA0154.1;0.0529077,MA0155.1;0.154271,MA0156.1;0.634231,MA0157.1;0.606944,MA0158.1;0,MA0159.1;0.495113,MA0160.1;0.347545,MA0161.1;0,MA0162.1;0.0355033,MA0163.1;0.0916052,MA0164.1;0.437937,MA0080.2;0.609443,MA0018.2;0.446948,MA0099.2;0.549696,MA0079.2;4.95466e-05,MA0102.2;1.45844,MA0258.1;1.34967,MA0259.1;0.14914,MA0442.1;0}}

Latest revision as of 15:40, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:55854487..55854525,-p1@Nmur2
Mm9::chr11:57886520..57886533,-p1@ENSMUST00000137124
Mm9::chr11:57886538..57886549,-p2@ENSMUST00000137124
Mm9::chr12:105247210..105247245,-p@chr12:105247210..105247245
-
Mm9::chr15:101361561..101361569,-p@chr15:101361561..101361569
-
Mm9::chr17:14398060..14398061,+p@chr17:14398060..14398061
+
Mm9::chr2:155140315..155140326,-p@chr2:155140315..155140326
-
Mm9::chr3:92169070..92169078,+p3@Sprr2f
Mm9::chr3:92169100..92169115,+p1@Sprr2f
Mm9::chr3:92169958..92169968,+p@chr3:92169958..92169968
+
Mm9::chr7:148248944..148248945,-p@chr7:148248944..148248945
-


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:0001607neuromedin U receptor activity0.00657408166816525
GO:0042924neuromedin U binding0.00657408166816525
GO:0001533cornified envelope0.0244772157503047
GO:0007566embryo implantation0.0244772157503047
GO:0030216keratinocyte differentiation0.0244772157503047
GO:0031424keratinization0.0244772157503047
GO:0009913epidermal cell differentiation0.0244772157503047
GO:0042923neuropeptide binding0.0244772157503047
GO:0008188neuropeptide receptor activity0.0244772157503047
GO:0042698menstrual cycle0.0244772157503047
GO:0007565female pregnancy0.0244772157503047
GO:0048730epidermis morphogenesis0.0268096031911463
GO:0032504multicellular organism reproduction0.0303963336594432
GO:0048609reproductive process in a multicellular organism0.0303963336594432
GO:0048729tissue morphogenesis0.0303963336594432
GO:0007218neuropeptide signaling pathway0.0303963336594432
GO:0030594neurotransmitter receptor activity0.0303963336594432
GO:0042165neurotransmitter binding0.0303963336594432
GO:0008544epidermis development0.0303963336594432
GO:0007398ectoderm development0.0303963336594432
GO:0001653peptide receptor activity0.0303963336594432
GO:0008528peptide receptor activity, G-protein coupled0.0303963336594432
GO:0042277peptide binding0.0370275566252879



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
female reproductive system1.37e-279
female organism1.24e-2211
female reproductive organ3.00e-208
internal female genitalia1.54e-185
vagina2.31e-111
oviduct4.58e-111
uterus or analog5.74e-111
tongue7.19e-111
gustatory system7.19e-111
future tongue7.19e-111
embryonic uterus7.23e-114
uterus7.23e-114
internal genitalia1.33e-109
reproductive structure1.09e-0926
reproductive system1.09e-0926
orifice8.42e-095
reproductive organ5.42e-0724
adult organism6.56e-0751


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)
MA0003.10.0132247
MA0004.10.330313
MA0006.10.186435
MA0007.10.850001
MA0009.10.743257
MA0014.10.00333639
MA0017.10.207884
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.10.462726
MA0040.10.755433
MA0041.10.263922
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0098576
MA0056.10
MA0057.10.048013
MA0058.10.246908
MA0059.10.257372
MA0060.10.12537
MA0061.10.451296
MA0063.10
MA0066.11.1475
MA0067.11.08124
MA0068.10.0500842
MA0069.13.00902
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.10.000134849
MA0074.11.07546
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.28966
MA0089.10
MA0090.10.811744
MA0091.10.342071
MA0092.10.300264
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.619698
MA0105.10.26272
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.11.51846
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.103495
MA0140.10.408417
MA0141.10.233109
MA0142.10.63775
MA0143.10.49828
MA0144.11.4253
MA0145.10.3137
MA0146.10.0833862
MA0147.10.157258
MA0148.10.344843
MA0149.10.269772
MA0062.20.271822
MA0035.20.412747
MA0039.20.00487869
MA0138.20.555696
MA0002.21.15479
MA0137.20.652494
MA0104.20.11535
MA0047.20.46201
MA0112.20.9035
MA0065.20.133827
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.0529077
MA0155.10.154271
MA0156.10.634231
MA0157.10.606944
MA0158.10
MA0159.10.495113
MA0160.10.347545
MA0161.10
MA0162.10.0355033
MA0163.10.0916052
MA0164.10.437937
MA0080.20.609443
MA0018.20.446948
MA0099.20.549696
MA0079.24.95466e-05
MA0102.21.45844
MA0258.11.34967
MA0259.10.14914
MA0442.10
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