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MCL coexpression mm9:552: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!9.22e-12!54;UBERON:0010371!2.99e-11!73;UBERON:0002346!6.41e-11!64;UBERON:0003075!6.41e-11!64;UBERON:0007284!6.41e-11!64;UBERON:0001049!8.18e-11!52;UBERON:0005068!8.18e-11!52;UBERON:0006241!8.18e-11!52;UBERON:0007135!8.18e-11!52;UBERON:0002020!2.33e-10!34;UBERON:0004121!4.42e-10!95;UBERON:0000924!4.42e-10!95;UBERON:0006601!4.42e-10!95;UBERON:0001017!1.15e-09!73;UBERON:0004111!3.43e-09!122;UBERON:0001016!6.84e-09!75;UBERON:0000955!8.29e-09!47;UBERON:0006238!8.29e-09!47;UBERON:0002616!2.39e-08!46;UBERON:0003056!2.55e-08!49;UBERON:0003528!3.05e-08!29;UBERON:0002791!3.05e-08!29;UBERON:0001893!3.05e-08!29;UBERON:0003080!5.82e-08!40;UBERON:0000025!6.09e-08!114;UBERON:0002780!1.65e-07!39;UBERON:0001890!1.65e-07!39;UBERON:0006240!1.65e-07!39;UBERON:0002021!1.77e-07!10;UBERON:0000411!1.77e-07!10;UBERON:0001950!1.77e-07!10;UBERON:0010314!4.86e-07!92
}}

Latest revision as of 15:30, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:4795834..4795904,+p2@Syne1
Mm9::chr10:5151486..5151504,+p10@Syne1
Mm9::chr10:9620958..9621048,-p1@Stxbp5
Mm9::chr13:41701236..41701271,+p1@Tmem170b
Mm9::chr16:22657321..22657333,-p4@Dgkg
Mm9::chr19:10599672..10599687,-p3@Sdhaf2
Mm9::chr1:23389988..23390064,-p1@Ogfrl1
Mm9::chr2:23904348..23904366,-p1@Hnmt
Mm9::chr2:23904377..23904388,-p3@Hnmt
Mm9::chr4:70195938..70196021,-p1@Megf9
Mm9::chr8:122638044..122638076,+p1@6430548M08Rik
Mm9::chr9:105397367..105397447,-p1@Atp2c1
Mm9::chr9:41932351..41932358,-p4@Sorl1


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
regional part of nervous system9.22e-1254
ecto-epithelium2.99e-1173
neurectoderm6.41e-1164
neural plate6.41e-1164
presumptive neural plate6.41e-1164
neural tube8.18e-1152
neural rod8.18e-1152
future spinal cord8.18e-1152
neural keel8.18e-1152
gray matter2.33e-1034
ectoderm-derived structure4.42e-1095
ectoderm4.42e-1095
presumptive ectoderm4.42e-1095
central nervous system1.15e-0973
anatomical conduit3.43e-09122
nervous system6.84e-0975
brain8.29e-0947
future brain8.29e-0947
regional part of brain2.39e-0846
pre-chordal neural plate2.55e-0849
brain grey matter3.05e-0829
regional part of telencephalon3.05e-0829
telencephalon3.05e-0829
anterior neural tube5.82e-0840
tube6.09e-08114
regional part of forebrain1.65e-0739
forebrain1.65e-0739
future forebrain1.65e-0739
occipital lobe1.77e-0710
visual cortex1.77e-0710
neocortex1.77e-0710
structure with developmental contribution from neural crest4.86e-0792


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)
MA0003.15.69603
MA0004.12.14802
MA0006.10.885417
MA0007.10.737361
MA0009.10.678286
MA0014.14.99562
MA0017.10.499735
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.470606
MA0029.10.616052
MA0030.11.50787
MA0031.10.588678
MA0038.10.405578
MA0040.10.690239
MA0041.10.622762
MA0042.10.207696
MA0043.10.771094
MA0046.10.712646
MA0048.10.945084
MA0050.10.840337
MA0051.10.413609
MA0052.10.697946
MA0055.11.77478
MA0056.10
MA0057.11.7119
MA0058.12.45953
MA0059.11.14533
MA0060.10.646504
MA0061.10.363764
MA0063.10
MA0066.10.395746
MA0067.11.01206
MA0068.10.571204
MA0069.10.698271
MA0070.10.688999
MA0071.10.838726
MA0072.11.6303
MA0073.10.443302
MA0074.10.363923
MA0076.10.181159
MA0077.10.660245
MA0078.10.443468
MA0081.10.651709
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.650294
MA0089.10
MA0090.10.251458
MA0091.10.791063
MA0092.10.251716
MA0093.12.87662
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.174916
MA0105.10.196316
MA0106.10.450539
MA0107.10.508149
MA0108.20.527977
MA0109.10
MA0111.10.263095
MA0113.10.424958
MA0114.10.111687
MA0115.10.773793
MA0116.10.884796
MA0117.10.742722
MA0119.11.17439
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.10.502588
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.38151
MA0139.12.54712
MA0140.10.353662
MA0141.10.18979
MA0142.10.575041
MA0143.10.439766
MA0144.10.365041
MA0145.10.4279
MA0146.11.04602
MA0147.10.773525
MA0148.11.45003
MA0149.10.223436
MA0062.21.67363
MA0035.20.357786
MA0039.22.24496
MA0138.20.495254
MA0002.20.266731
MA0137.20.187581
MA0104.21.50974
MA0047.20.404891
MA0112.21.02934
MA0065.20.224871
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.10.932301
MA0155.10.484422
MA0156.10.180505
MA0157.10.545026
MA0158.10
MA0159.10.403827
MA0160.10.296006
MA0161.10
MA0162.13.19429
MA0163.11.77891
MA0164.10.381832
MA0080.20.509758
MA0018.20.390455
MA0099.20.489441
MA0079.26.8499
MA0102.21.38728
MA0258.10.687966
MA0259.10.741714
MA0442.10
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