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MCL coexpression mm9:979: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!8.14e-38!95;UBERON:0000924!8.14e-38!95;UBERON:0006601!8.14e-38!95;UBERON:0001016!4.57e-35!75;UBERON:0001017!5.75e-34!73;UBERON:0002346!2.28e-29!64;UBERON:0003075!2.28e-29!64;UBERON:0007284!2.28e-29!64;UBERON:0010371!6.67e-28!73;UBERON:0010314!9.32e-24!92;UBERON:0000073!8.45e-23!54;UBERON:0003056!1.03e-22!49;UBERON:0001049!8.13e-22!52;UBERON:0005068!8.13e-22!52;UBERON:0006241!8.13e-22!52;UBERON:0007135!8.13e-22!52;UBERON:0000955!2.47e-19!47;UBERON:0006238!2.47e-19!47;UBERON:0002616!6.93e-19!46;UBERON:0003080!1.16e-17!40;UBERON:0002780!4.59e-17!39;UBERON:0001890!4.59e-17!39;UBERON:0006240!4.59e-17!39;UBERON:0002020!9.76e-16!34;UBERON:0003528!1.27e-13!29;UBERON:0002791!1.27e-13!29;UBERON:0001893!1.27e-13!29;UBERON:0000468!2.85e-10!333;UBERON:0000956!1.56e-09!21;UBERON:0001869!1.56e-09!21;UBERON:0000203!1.56e-09!21;UBERON:0000922!1.68e-08!320;UBERON:0000025!2.30e-08!114;UBERON:0000010!3.46e-08!11;UBERON:0004111!4.53e-08!122;UBERON:0002619!4.99e-08!17;UBERON:0002410!1.90e-07!9
|ontology_enrichment_uberon=UBERON:0004121!8.14e-38!95;UBERON:0000924!8.14e-38!95;UBERON:0006601!8.14e-38!95;UBERON:0001016!4.57e-35!75;UBERON:0001017!5.75e-34!73;UBERON:0002346!2.28e-29!64;UBERON:0003075!2.28e-29!64;UBERON:0007284!2.28e-29!64;UBERON:0010371!6.67e-28!73;UBERON:0010314!9.32e-24!92;UBERON:0000073!8.45e-23!54;UBERON:0003056!1.03e-22!49;UBERON:0001049!8.13e-22!52;UBERON:0005068!8.13e-22!52;UBERON:0006241!8.13e-22!52;UBERON:0007135!8.13e-22!52;UBERON:0000955!2.47e-19!47;UBERON:0006238!2.47e-19!47;UBERON:0002616!6.93e-19!46;UBERON:0003080!1.16e-17!40;UBERON:0002780!4.59e-17!39;UBERON:0001890!4.59e-17!39;UBERON:0006240!4.59e-17!39;UBERON:0002020!9.76e-16!34;UBERON:0003528!1.27e-13!29;UBERON:0002791!1.27e-13!29;UBERON:0001893!1.27e-13!29;UBERON:0000468!2.85e-10!333;UBERON:0000956!1.56e-09!21;UBERON:0001869!1.56e-09!21;UBERON:0000203!1.56e-09!21;UBERON:0000922!1.68e-08!320;UBERON:0000025!2.30e-08!114;UBERON:0000010!3.46e-08!11;UBERON:0004111!4.53e-08!122;UBERON:0002619!4.99e-08!17;UBERON:0002410!1.90e-07!9
|tfbs_overrepresentation_for_novel_motifs=1.01838,1.66496,0.367606,0.434198,0.260188,0.448401,1.33049,0.173246,1.02512,2.00573,1.23792,0.526159,0.992329,0.550255,0.275867,0,0.742571,0.252772,0.483643,0.620214,0.332107,0.0622758,1.35437,0.258745,0.374936,0.577606,0.153291,1.18318,0.818708,0.376624,0.455168,0.843667,0.250677,0.425071,1.38756,0.0711618,1.26012,1.29755,0.631914,1.08217,0.256422,0.460258,0.204736,0.27776,1.7835,1.08432,0.662995,0.484612,0.386968,0.305876,0.725127,0.604356,0.112729,0.985264,1.00271,1.37128,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.560836,0.713876,1.39465,0.754324,1.139,1.48833,0.818971,1.34113,0.922232,0.527912,1.31587,1.03623,3.4185,0.409836,0.136938,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,5.69681,0.0299392,0.376919,0.667883,1.65055,1.20871,0.925879,0.856465,2.07611,0.62322,0.202284,0.1711,0.859272,0.663249,0.681235,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,1.61924,0.333829,0.386136,0.96962,0.895335,0.499714,1.21576,0.254749,4.16154,1.11602,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,2.85877,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.381863,4.84212,0.986833,0.598134,0.569994,1.06851,0.605358,0.287226,0.39061,1.03572,1.1977,0.920047,0.810622,1.76938,0.714896,0.562634,0.676555,0.524587,0.331912
}}
}}

Revision as of 19:12, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:50753132..50753192,-p1@Sorcs1
Mm9::chr19:50753202..50753223,-p2@Sorcs1
Mm9::chr1:168931170..168931202,+p1@Fam78b
Mm9::chr5:112658087..112658107,-p5@Miat
Mm9::chr7:38557752..38557793,-p3@Zfp536
Mm9::chr9:47338426..47338445,+p1@Cadm1
Mm9::chr9:62384812..62384823,-p8@Coro2b
Mm9::chr9:62384843..62384868,-p3@Coro2b


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:0042271susceptibility to natural killer cell mediated cytotoxicity0.0459669089702543
GO:0016338calcium-independent cell-cell adhesion0.0459669089702543
GO:0045954positive regulation of natural killer cell mediated cytotoxicity0.0459669089702543
GO:0030165PDZ domain binding0.0459669089702543
GO:0042269regulation of natural killer cell mediated cytotoxicity0.0459669089702543
GO:0001912positive regulation of leukocyte mediated cytotoxicity0.0459669089702543
GO:0008022protein C-terminus binding0.0459669089702543
GO:0042267natural killer cell mediated cytotoxicity0.0459669089702543
GO:0001910regulation of leukocyte mediated cytotoxicity0.0459669089702543
GO:0031341regulation of cell killing0.0459669089702543
GO:0002228natural killer cell mediated immunity0.0459669089702543
GO:0007416synaptogenesis0.0494115251264313
GO:0001906cell killing0.0494115251264313
GO:0007157heterophilic cell adhesion0.0494115251264313
GO:0001909leukocyte mediated cytotoxicity0.0494115251264313



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
ectoderm-derived structure8.14e-3895
ectoderm8.14e-3895
presumptive ectoderm8.14e-3895
nervous system4.57e-3575
central nervous system5.75e-3473
neurectoderm2.28e-2964
neural plate2.28e-2964
presumptive neural plate2.28e-2964
ecto-epithelium6.67e-2873
structure with developmental contribution from neural crest9.32e-2492
regional part of nervous system8.45e-2354
pre-chordal neural plate1.03e-2249
neural tube8.13e-2252
neural rod8.13e-2252
future spinal cord8.13e-2252
neural keel8.13e-2252
brain2.47e-1947
future brain2.47e-1947
regional part of brain6.93e-1946
anterior neural tube1.16e-1740
regional part of forebrain4.59e-1739
forebrain4.59e-1739
future forebrain4.59e-1739
gray matter9.76e-1634
brain grey matter1.27e-1329
regional part of telencephalon1.27e-1329
telencephalon1.27e-1329
multi-cellular organism2.85e-10333
cerebral cortex1.56e-0921
cerebral hemisphere1.56e-0921
pallium1.56e-0921
embryo1.68e-08320
tube2.30e-08114
peripheral nervous system3.46e-0811
anatomical conduit4.53e-08122
regional part of cerebral cortex4.99e-0817
autonomic nervous system1.90e-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)

{{{tfbs_overrepresentation_jaspar}}}