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MCL coexpression mm9:630: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0818436986734574,0.0549981337564001,0,0,0,0.0501827898833331,0.0397493170902889,0,0,0.179192416738202,0.164596587144155,0,0.0729756721489083,0,0,0,0.163875090269313,0.112145192034931,0.154458983811568,0.0742309351586685,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.14246314814311,0.780081084149577,0,0,0,0,0.370719502440887,0.451786805560604,0.2440112939716,0.310256870570088,0.403856780142017,0.309404493414426,0.390965359711181,0,0,0,0.0829439327499637,0.0531247310291112,0,0.0719048733411253,0.204884555489854,0.148670198047907,0.214994395403007,0.166876500959517,0.249469886918853,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.354442619554705,0.180275890794066,0,0,0.0839639919176933,0.0906941294286938,0.0526429550379996,0,0,0,0,0,0.0973736644748266,0,0,0,0,0,0,0,0,0,0,0.0294389011296462,0.0266298923127834,0.0597943799295356,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.170746144160095,0.200319183388305,0,0,0,0,0,0,0,0,0,0,0,0.624613432471662,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0709019855629759,0.0712812415377886,0.0661577744756082,0,0,0,0,0,0,0,0,0,0,0.284910225716314,0,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0,0,0.054943952156948,0.034489466458534,0,0,0,0,0,0,0,0,0,0,0.0531569878936061,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.141882030247812,0,0,0,0,0.858071992876192,0.670487236271907,0.789302817287802,0.801228629538016,0.645953767926874,0.892013586769674,0.568212287967179,0.774774782408866,0.705716786543494,0.752804369432746,0,0.145825435924841,0,0.0945084131504676,0,0,0,0.081359932135904,0,0,0,0.0750453505157095,0.0745542549075041,0.0269518943326477,0.0472245945615809,0,0.0476191773904887,0.0766073954291401,0,0.0596387295197733,0,0,0.092873634605593,0,0.0390607415003592,0.0678996586311492,0.0729583017401753,0.101427320830301,0.0553034373508932,0.193442483447008,0,0.0780974029773103,0,0.0625582350728301,0.0766064454112358,0.0968441960560167,0,0.0845301845292944,0.0760168881589905,0,0
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!2.89e-26!64;UBERON:0003075!2.89e-26!64;UBERON:0007284!2.89e-26!64;UBERON:0003056!7.41e-23!49;UBERON:0000073!6.77e-22!54;UBERON:0001049!1.17e-21!52;UBERON:0005068!1.17e-21!52;UBERON:0006241!1.17e-21!52;UBERON:0007135!1.17e-21!52;UBERON:0010371!2.62e-21!73;UBERON:0000955!1.69e-20!47;UBERON:0006238!1.69e-20!47;UBERON:0002616!2.03e-19!46;UBERON:0003080!1.35e-16!40;UBERON:0004121!1.95e-16!95;UBERON:0000924!1.95e-16!95;UBERON:0006601!1.95e-16!95;UBERON:0002020!5.20e-16!34;UBERON:0002780!1.34e-15!39;UBERON:0001890!1.34e-15!39;UBERON:0006240!1.34e-15!39;UBERON:0001017!1.50e-15!73;UBERON:0003528!5.20e-15!29;UBERON:0002791!5.20e-15!29;UBERON:0001893!5.20e-15!29;UBERON:0001016!8.10e-15!75;UBERON:0000956!1.12e-14!21;UBERON:0001869!1.12e-14!21;UBERON:0000203!1.12e-14!21;UBERON:0010314!3.92e-14!92;UBERON:0002021!4.10e-14!10;UBERON:0000411!4.10e-14!10;UBERON:0001950!4.10e-14!10;UBERON:0002619!3.26e-13!17;UBERON:0000970!2.47e-07!9;UBERON:0000019!2.47e-07!9;UBERON:0000047!2.47e-07!9;UBERON:0010312!2.47e-07!9;UBERON:0004088!2.47e-07!9;UBERON:0002104!2.47e-07!9;UBERON:0001456!2.47e-07!9;UBERON:0003072!2.47e-07!9;UBERON:0004128!2.47e-07!9;UBERON:0003071!2.47e-07!9
|tfbs_overrepresentation_for_novel_motifs=0.29262,0.0103138,0.269904,0.878892,0.176699,0.342839,0.425757,0.106126,0.362206,0.081847,0.385334,0.414631,0.106288,0.437133,0.189961,0,0.619876,0.980191,0.096222,0.387499,0.670854,0.117252,0.436294,0.520732,0.276437,0.4628,0.304017,0.361771,0.213277,0.231659,0.349031,0.717576,0.168723,0.570676,0.19035,0.168684,0.161521,0.411296,0.144953,0.123934,0.51597,0.353696,0.255102,1.67896,0.195622,0.319944,0.543674,0.376103,0.208261,0.215702,0.603113,0.488021,0.0612063,0.855661,0.87275,0.443782,0.223087,0.40287,0.0851299,0.441884,0.698157,0.496904,0.120887,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,1.18624,0.0307733,0.905636,0.0810502,0.0742951,0.270351,0.532872,0.681539,1.26039,1.19172,0.636582,1.23994,0.101814,0.792744,0.00855221,0.291599,2.37644,0.548334,1.51408,1.07554,0.797601,0.730003,0.535058,0.141946,1.89711,0.340672,0.732731,0.543917,0.0534645,0.943642,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,0.243062,0.390066,1.0825,0.512539,0.0643992,0.333247,0.621127,1.48948,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,0.433317,0.723425,1.00525,0.183744,0.821997,0.323373,0.976125,0.456508,1.10385,0.115066,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,1.19763,0.727736,0.596462,0.354106,1.34861,1.84176,0.302077,0.178088,0.0664621,0.0240729,0.857198,0.824171,0.455644,0.93735,4.25343,0.199652,0.790184,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,0.448733,0.160658,1.06237,0.00349204
}}

Latest revision as of 15:37, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:106786962..106786974,+p@chr10:106786962..106786974
+
Mm9::chr10:49442858..49442870,-p@chr10:49442858..49442870
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Mm9::chr11:118658053..118658067,-p@chr11:118658053..118658067
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Mm9::chr11:118659044..118659060,-p@chr11:118659044..118659060
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Mm9::chr11:118659078..118659088,-p@chr11:118659078..118659088
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Mm9::chr11:118730236..118730251,-p@chr11:118730236..118730251
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Mm9::chr11:118730433..118730472,-p@chr11:118730433..118730472
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Mm9::chr18:77434749..77434758,+p@chr18:77434749..77434758
+
Mm9::chr18:77434917..77434945,+p@chr18:77434917..77434945
+
Mm9::chr3:156225635..156225654,+p@chr3:156225635..156225654
+
Mm9::chr4:154702755..154702799,-p@chr4:154702755..154702799
-


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
neurectoderm2.89e-2664
neural plate2.89e-2664
presumptive neural plate2.89e-2664
pre-chordal neural plate7.41e-2349
regional part of nervous system6.77e-2254
neural tube1.17e-2152
neural rod1.17e-2152
future spinal cord1.17e-2152
neural keel1.17e-2152
ecto-epithelium2.62e-2173
brain1.69e-2047
future brain1.69e-2047
regional part of brain2.03e-1946
anterior neural tube1.35e-1640
ectoderm-derived structure1.95e-1695
ectoderm1.95e-1695
presumptive ectoderm1.95e-1695
gray matter5.20e-1634
regional part of forebrain1.34e-1539
forebrain1.34e-1539
future forebrain1.34e-1539
central nervous system1.50e-1573
brain grey matter5.20e-1529
regional part of telencephalon5.20e-1529
telencephalon5.20e-1529
nervous system8.10e-1575
cerebral cortex1.12e-1421
cerebral hemisphere1.12e-1421
pallium1.12e-1421
structure with developmental contribution from neural crest3.92e-1492
occipital lobe4.10e-1410
visual cortex4.10e-1410
neocortex4.10e-1410
regional part of cerebral cortex3.26e-1317
eye2.47e-079
camera-type eye2.47e-079
simple eye2.47e-079
immature eye2.47e-079
ocular region2.47e-079
visual system2.47e-079
face2.47e-079
optic cup2.47e-079
optic vesicle2.47e-079
eye primordium2.47e-079


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)
MA0003.10.00322434
MA0004.10.330313
MA0006.10.186435
MA0007.10.316976
MA0009.10.743257
MA0014.10.00333639
MA0017.10.598706
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.11.16958
MA0040.10.755433
MA0041.10.263922
MA0042.10.703657
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0494654
MA0056.10
MA0057.10.406124
MA0058.10.246908
MA0059.10.714494
MA0060.10.12537
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.12.58254e-05
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.0293443
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.812369
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.11.05226
MA0101.10.265031
MA0103.10.216742
MA0105.10.0759118
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.312463
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
MA0144.10.147954
MA0145.10.0329586
MA0146.10.00490019
MA0147.10.157258
MA0148.11.63329
MA0149.17.99425
MA0062.20.0791588
MA0035.20.412747
MA0039.20.000111734
MA0138.20.555696
MA0002.20.699393
MA0137.20.230686
MA0104.20.11535
MA0047.23.01952
MA0112.20.133279
MA0065.20.574339
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.0529077
MA0155.10.154271
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.10.495113
MA0160.10.347545
MA0161.10
MA0162.10.00661648
MA0163.10.0308606
MA0164.11.11611
MA0080.20.609443
MA0018.20.446948
MA0099.20.549696
MA0079.24.95466e-05
MA0102.21.45844
MA0258.10.833943
MA0259.10.14914
MA0442.10
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