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MCL coexpression mm9:706: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!1.62e-08!23;CL:0000337!1.62e-08!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002020!7.36e-14!34;UBERON:0003528!4.27e-12!29;UBERON:0002791!4.27e-12!29;UBERON:0001893!4.27e-12!29;UBERON:0003080!1.44e-11!40;UBERON:0002780!2.74e-11!39;UBERON:0001890!2.74e-11!39;UBERON:0006240!2.74e-11!39;UBERON:0001049!2.93e-11!52;UBERON:0005068!2.93e-11!52;UBERON:0006241!2.93e-11!52;UBERON:0007135!2.93e-11!52;UBERON:0000073!4.15e-11!54;UBERON:0010371!7.70e-11!73;UBERON:0003056!1.16e-10!49;UBERON:0000956!1.17e-10!21;UBERON:0001869!1.17e-10!21;UBERON:0000203!1.17e-10!21;UBERON:0000955!4.34e-10!47;UBERON:0006238!4.34e-10!47;UBERON:0002346!5.94e-10!64;UBERON:0003075!5.94e-10!64;UBERON:0007284!5.94e-10!64;UBERON:0002616!1.53e-09!46;UBERON:0002619!4.56e-08!17;UBERON:0001017!1.23e-07!73;UBERON:0004121!2.83e-07!95;UBERON:0000924!2.83e-07!95;UBERON:0006601!2.83e-07!95;UBERON:0002021!6.68e-07!10;UBERON:0000411!6.68e-07!10;UBERON:0001950!6.68e-07!10;UBERON:0001016!9.39e-07!75
|tfbs_overrepresentation_for_novel_motifs=1.55081,0.178895,0.297937,0.360062,0.200163,0.373426,0.458558,0.124431,0.131493,1.53832,0.417132,0.447169,0.124608,0.470194,0.214197,0,0.656089,0.564478,0.736624,0.451901,0.26524,0.0365724,0.469335,0.198877,0.304728,0.496413,0.709649,0.392919,0.238759,0.271461,0.379806,0.754912,0.191698,0.31333,0.614653,0.218093,0.184038,0.443753,0.166348,0.868806,0.196807,0.38461,0.56316,0.215898,1.68044,0.349801,0.578773,0.407653,1.12721,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.249055,0.435119,1.12723,0.47505,0.735292,0.531188,0.140453,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.76885,0.404236,4.30526,0.944464,0.659328,0.623453,0.313198,0.567793,0.718494,1.36049,0.406536,0.673009,0.529804,0.119727,0.830765,1.14518,1.64605,0.271714,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,1.51576,0.455999,0.777003,0.770215,1.41701,0.0659594,2.32655,1.78319,0.87698,0.639679,0.638654,0.3842,1.66347,0.403887,0.273261,2.90151,0.315128,0.878738,0.26996,1.08155,1.12221,0.195318,3.34205,0.953611,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.931072,1.01535,0.48999,1.14365,0.142597,0.877308,0.385921,2.47881,1.92247,1.5231,1.0508,1.27006,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,1.10485,0.275954,1.27437,0.895708,0.153911,0.489108,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.350088
}}

Latest revision as of 15:45, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:23976529..23976563,+p1@ENSMUST00000148087
Mm9::chr11:23976612..23976628,+p2@ENSMUST00000148087
Mm9::chr11:23977742..23977794,+p6@Bcl11a
Mm9::chr11:23977800..23977810,+p13@Bcl11a
Mm9::chr11:23977965..23977974,+p11@Bcl11a
Mm9::chr11:23978022..23978076,+p1@Bcl11a
Mm9::chr11:23978078..23978096,+p4@Bcl11a
Mm9::chr11:23978111..23978134,+p3@Bcl11a
Mm9::chr11:23980664..23980706,+p2@Bcl11a
Mm9::chr8:71708148..71708156,-p2@ENSMUST00000172413
p2@uc009lxb.1


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>

Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)1.62e-0823
neuroblast (sensu Vertebrata)1.62e-0823

Uber Anatomy
Ontology termp-valuen
gray matter7.36e-1434
brain grey matter4.27e-1229
regional part of telencephalon4.27e-1229
telencephalon4.27e-1229
anterior neural tube1.44e-1140
regional part of forebrain2.74e-1139
forebrain2.74e-1139
future forebrain2.74e-1139
neural tube2.93e-1152
neural rod2.93e-1152
future spinal cord2.93e-1152
neural keel2.93e-1152
regional part of nervous system4.15e-1154
ecto-epithelium7.70e-1173
pre-chordal neural plate1.16e-1049
cerebral cortex1.17e-1021
cerebral hemisphere1.17e-1021
pallium1.17e-1021
brain4.34e-1047
future brain4.34e-1047
neurectoderm5.94e-1064
neural plate5.94e-1064
presumptive neural plate5.94e-1064
regional part of brain1.53e-0946
regional part of cerebral cortex4.56e-0817
central nervous system1.23e-0773
ectoderm-derived structure2.83e-0795
ectoderm2.83e-0795
presumptive ectoderm2.83e-0795
occipital lobe6.68e-0710
visual cortex6.68e-0710
neocortex6.68e-0710
nervous system9.39e-0775


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)
MA0003.10.958381
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.11.43076
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.509074
MA0050.11.02593
MA0051.10.504875
MA0052.10.801048
MA0055.114.9525
MA0056.10
MA0057.12.2848
MA0058.10.273976
MA0059.10.28489
MA0060.10.8754
MA0061.10.16896
MA0063.10
MA0066.12.1141
MA0067.11.12095
MA0068.12.93882
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.110.697
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.12.96655
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.877917
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.242398
MA0105.13.47242
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.966314
MA0115.10.878749
MA0116.12.51573
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.12.48348
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.11.83412
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.163161
MA0146.10.00739145
MA0147.10.179496
MA0148.10.375491
MA0149.15.04887
MA0062.20.0948004
MA0035.20.44524
MA0039.25.88263
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.134457
MA0047.20.495607
MA0112.21.95537
MA0065.22.50457
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.13.67426
MA0155.10.416651
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.12.35355
MA0160.10.378276
MA0161.10
MA0162.11.7893
MA0163.15.36152
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.233.6623
MA0102.21.49914
MA0258.10.921856
MA0259.10.50935
MA0442.10
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