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MCL coexpression mm9:817: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!6.26e-16!64;UBERON:0003075!6.26e-16!64;UBERON:0007284!6.26e-16!64;UBERON:0000073!1.74e-15!54;UBERON:0010371!3.48e-15!73;UBERON:0001049!1.63e-14!52;UBERON:0005068!1.63e-14!52;UBERON:0006241!1.63e-14!52;UBERON:0007135!1.63e-14!52;UBERON:0004121!5.84e-14!95;UBERON:0000924!5.84e-14!95;UBERON:0006601!5.84e-14!95;UBERON:0001017!6.42e-13!73;UBERON:0003056!8.96e-13!49;UBERON:0001016!2.83e-12!75;UBERON:0000955!4.17e-12!47;UBERON:0006238!4.17e-12!47;UBERON:0002616!1.73e-11!46;UBERON:0002020!1.95e-11!34;UBERON:0003080!1.37e-10!40;UBERON:0000468!1.48e-10!333;UBERON:0010314!2.37e-10!92;UBERON:0002780!4.44e-10!39;UBERON:0001890!4.44e-10!39;UBERON:0006240!4.44e-10!39;UBERON:0003528!6.62e-09!29;UBERON:0002791!6.62e-09!29;UBERON:0001893!6.62e-09!29;UBERON:0002021!5.82e-08!10;UBERON:0000411!5.82e-08!10;UBERON:0001950!5.82e-08!10;UBERON:0000479!2.39e-07!349;UBERON:0002048!3.48e-07!14;UBERON:0000117!3.48e-07!14;UBERON:0000171!3.48e-07!14;UBERON:0000170!3.48e-07!14;UBERON:0005597!3.48e-07!14;UBERON:0000118!3.48e-07!14;UBERON:0000922!4.96e-07!320;UBERON:0000956!5.04e-07!21;UBERON:0001869!5.04e-07!21;UBERON:0000203!5.04e-07!21;UBERON:0002619!9.02e-07!17
|tfbs_overrepresentation_for_novel_motifs=0.93395,0.706384,0.879518,0.394491,0.227651,0.40827,0.495658,0.448965,0.154135,0.573183,0.453212,0.484001,0.88117,0.507558,0.680035,0,0.696644,0.62892,0.134657,0.528436,0.296085,0.179861,0.50668,0.226287,0.337218,0.534339,0.128175,0.428336,0.268347,1.09271,0.414842,0.796599,0.218674,0.364174,1.95748,0.137663,3.32563,0.480503,0.191662,0.967553,0.224094,0.419787,0.163087,0.684206,2.40772,0.383899,0.618203,0.443479,0.133514,0.271021,0.679429,0.560572,1.05886,0.937018,0.954342,0.514504,0.279148,0.471658,0.12126,0.512521,0.776777,0.569793,0.163832,0.668331,2.24453,0.708248,1.08987,1.43807,0.772155,1.29123,0.840217,0.151245,1.60811,0.987652,1.7889,0.107966,0.113315,0.607043,0.759798,0.299972,0.152219,2.85165,0.568383,0.14134,0.873141,12.9389,0.231102,0.657454,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.551605,0.17334,0.14449,0.812053,0.618454,1.47057,0.210602,0.796322,0.919715,0.680015,0.678976,1.07585,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,2.25476,0.458194,1.16629,0.222515,2.04793,0.398075,0.697928,0.207304,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,0.387557,1.05894,0.527782,1.18781,0.177062,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,0.621266,1.92834,0.956381,1.2115,1.10522,0.659481,0.938577,0.527659,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,0.519673,0.209556,0.482466,0.976805
}}

Latest revision as of 15:56, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:69100486..69100490,-p@chr13:69100486..69100490
-
Mm9::chr13:69138160..69138214,-p3@Adcy2
Mm9::chr13:69138284..69138335,-p1@Adcy2
Mm9::chr13:69138396..69138443,-p2@Adcy2
Mm9::chr3:26052336..26052388,-p2@Nlgn1
Mm9::chr4:128331930..128331973,+p3@Phc2
Mm9::chr5:128938926..128938955,-p1@Tmem132d
Mm9::chr9:36954842..36954908,-p1@Pknox2
Mm9::chr9:51573430..51573469,+p1@Arhgap20


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
neurectoderm6.26e-1664
neural plate6.26e-1664
presumptive neural plate6.26e-1664
regional part of nervous system1.74e-1554
ecto-epithelium3.48e-1573
neural tube1.63e-1452
neural rod1.63e-1452
future spinal cord1.63e-1452
neural keel1.63e-1452
ectoderm-derived structure5.84e-1495
ectoderm5.84e-1495
presumptive ectoderm5.84e-1495
central nervous system6.42e-1373
pre-chordal neural plate8.96e-1349
nervous system2.83e-1275
brain4.17e-1247
future brain4.17e-1247
regional part of brain1.73e-1146
gray matter1.95e-1134
anterior neural tube1.37e-1040
multi-cellular organism1.48e-10333
structure with developmental contribution from neural crest2.37e-1092
regional part of forebrain4.44e-1039
forebrain4.44e-1039
future forebrain4.44e-1039
brain grey matter6.62e-0929
regional part of telencephalon6.62e-0929
telencephalon6.62e-0929
occipital lobe5.82e-0810
visual cortex5.82e-0810
neocortex5.82e-0810
tissue2.39e-07349
lung3.48e-0714
respiratory tube3.48e-0714
respiration organ3.48e-0714
pair of lungs3.48e-0714
lung primordium3.48e-0714
lung bud3.48e-0714
embryo4.96e-07320
cerebral cortex5.04e-0721
cerebral hemisphere5.04e-0721
pallium5.04e-0721
regional part of cerebral cortex9.02e-0717


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)
MA0003.15.59316
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.12.09919
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.10.993388
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.11.84247
MA0056.10
MA0057.10.549903
MA0058.10.823526
MA0059.10.316585
MA0060.10.505012
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.077274
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.13.57359
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.728131
MA0089.10
MA0090.10.362551
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.10.324888
MA0103.10.272167
MA0105.10.35523
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.238371
MA0117.12.06044
MA0119.10.868953
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.11.39725
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.195095
MA0145.10.442138
MA0146.11.46813
MA0147.10.205697
MA0148.10.410398
MA0149.10.330018
MA0062.20.113962
MA0035.20.482026
MA0039.22.01003
MA0138.20.630612
MA0002.20.447007
MA0137.20.287486
MA0104.20.476119
MA0047.20.533516
MA0112.21.17898
MA0065.20.200864
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.0809407
MA0155.11.78118
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.19.09394
MA0163.14.64338
MA0164.10.508398
MA0080.20.737531
MA0018.20.51781
MA0099.20.624421
MA0079.29.47384
MA0102.21.5442
MA0258.10.180934
MA0259.10.196451
MA0442.10
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