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MCL coexpression mm9:1133: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!1.32e-18!44;CL:0000133!1.32e-18!44;CL:0002319!4.67e-18!43;CL:0000055!1.26e-17!49;CL:0000540!1.85e-12!33;CL:0000047!1.85e-12!33;CL:0000031!1.85e-12!33;CL:0000404!1.85e-12!33;CL:0000393!3.94e-12!39;CL:0000211!3.94e-12!39;CL:0000117!4.65e-12!23;CL:0000337!4.65e-12!23;CL:0000333!9.27e-07!10;CL:0000095!9.27e-07!10;CL:0000243!9.27e-07!10;CL:0000123!9.27e-07!10;CL:0000125!9.27e-07!10;CL:0000030!9.27e-07!10;CL:0000339!9.27e-07!10
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!4.26e-35!75;UBERON:0001017!1.56e-34!73;UBERON:0004121!6.92e-32!95;UBERON:0000924!6.92e-32!95;UBERON:0006601!6.92e-32!95;UBERON:0000073!1.75e-27!54;UBERON:0001049!4.60e-26!52;UBERON:0005068!4.60e-26!52;UBERON:0006241!4.60e-26!52;UBERON:0007135!4.60e-26!52;UBERON:0002346!6.80e-25!64;UBERON:0003075!6.80e-25!64;UBERON:0007284!6.80e-25!64;UBERON:0010314!1.20e-24!92;UBERON:0010371!1.59e-23!73;UBERON:0000955!3.14e-23!47;UBERON:0006238!3.14e-23!47;UBERON:0002616!1.57e-22!46;UBERON:0003080!9.67e-19!40;UBERON:0002020!1.22e-18!34;UBERON:0003056!3.87e-18!49;UBERON:0002780!4.95e-18!39;UBERON:0001890!4.95e-18!39;UBERON:0006240!4.95e-18!39;UBERON:0003528!4.99e-16!29;UBERON:0002791!4.99e-16!29;UBERON:0001893!4.99e-16!29;UBERON:0000956!5.01e-12!21;UBERON:0001869!5.01e-12!21;UBERON:0000203!5.01e-12!21;UBERON:0004111!1.31e-10!122;UBERON:0000025!1.51e-10!114;UBERON:0002619!2.49e-10!17;UBERON:0003076!7.10e-08!12;UBERON:0003057!7.10e-08!12
}}

Latest revision as of 16:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:52533766..52533777,-p@chr14:52533766..52533777
-
Mm9::chr18:37984235..37984288,+p1@Pcdhgb8
Mm9::chr18:37984600..37984626,+p@chr18:37984600..37984626
+
Mm9::chr7:112630367..112630418,-p@chr7:112630367..112630418
-
Mm9::chr7:112630439..112630454,-p@chr7:112630439..112630454
-
Mm9::chr7:112630467..112630478,-p@chr7:112630467..112630478
-
Mm9::chr9:108998082..108998114,+p1@Plxnb1


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>

Uber Anatomy
Ontology termp-valuen
nervous system4.26e-3575
central nervous system1.56e-3473
ectoderm-derived structure6.92e-3295
ectoderm6.92e-3295
presumptive ectoderm6.92e-3295
regional part of nervous system1.75e-2754
neural tube4.60e-2652
neural rod4.60e-2652
future spinal cord4.60e-2652
neural keel4.60e-2652
neurectoderm6.80e-2564
neural plate6.80e-2564
presumptive neural plate6.80e-2564
structure with developmental contribution from neural crest1.20e-2492
ecto-epithelium1.59e-2373
brain3.14e-2347
future brain3.14e-2347
regional part of brain1.57e-2246
anterior neural tube9.67e-1940
gray matter1.22e-1834
pre-chordal neural plate3.87e-1849
regional part of forebrain4.95e-1839
forebrain4.95e-1839
future forebrain4.95e-1839
brain grey matter4.99e-1629
regional part of telencephalon4.99e-1629
telencephalon4.99e-1629
cerebral cortex5.01e-1221
cerebral hemisphere5.01e-1221
pallium5.01e-1221
anatomical conduit1.31e-10122
tube1.51e-10114
regional part of cerebral cortex2.49e-1017
posterior neural tube7.10e-0812
chordal neural plate7.10e-0812


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)
MA0003.10.79075
MA0004.10.481116
MA0006.10.837454
MA0007.10.465969
MA0009.10.92425
MA0014.10.425579
MA0017.10.337808
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.321735
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.10.404721
MA0042.10.391504
MA0043.11.02178
MA0046.10.960497
MA0048.12.54841
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.11.43589
MA0056.10
MA0057.10.756125
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.12.47843
MA0069.10.945354
MA0070.10.93557
MA0071.11.29103
MA0072.10.927016
MA0073.12.84193
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.285759
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.348572
MA0105.10.488671
MA0106.10.677988
MA0107.10.342432
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.12.30533
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.10.202522
MA0140.10.568252
MA0141.12.58258
MA0142.10.814115
MA0143.10.665982
MA0144.10.262477
MA0145.10.304732
MA0146.10.0256827
MA0147.10.753844
MA0148.10.49752
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.113749
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.624968
MA0047.20.626803
MA0112.22.13872
MA0065.21.56466
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.397336
MA0155.11.13804
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.12.16282
MA0161.10
MA0162.11.71182
MA0163.10.519779
MA0164.10.600609
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.24.54496
MA0102.21.65195
MA0258.10.688848
MA0259.11.34223
MA0442.10
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