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MCL coexpression mm9:491: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.202843190349958,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0583821828293117,0,0.0568996784870888,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.342106802711204,0.391218457651958,0,0,0,0.349063385543086,0.323116468687679,0,0,0,0.991636709896498,0.717185272729006,0.823869696355722,0,0,0,0.736713084825951,0.948348234470256,0.830966875433846,0.21016670557241,0.268163623204797,0.00783579303708656,0,0,0,0,0,0,0,0,0.101245098008666,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.391623779964764,0.264295134298998,0,0,0,0,0.727860642262913,0.516866159673758,0,0.486056691420592,0.35766376392443,0.635946818970111,0.627859817173333,0,0,0.0978549673988937,0,0,0,0,0,0,0,0,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0197889407591105,0,0,0,0.461289813759464,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.614061914935632,0.539257487858814,0,0,0,0,0,0,0,0,0,0,0,0.358940419539848,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.507483923817102,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194445471641185,0.376754964798171,0.331587424856164,0.361164718034908,0.485046405834616,0.514040340140897,0.480735069848811,0.347566289184351,0.420244759041355,0.407098602473158,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.037468938902345
|gostat_on_MCL_coexpression=GO:0016492;neurotensin receptor activity, G-protein coupled;0.0394412483415015;18217!
}}

Latest revision as of 15:23, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:16660339..16660350,+p@chr12:16660339..16660350
+
Mm9::chr12:16660375..16660389,+p@chr12:16660375..16660389
+
Mm9::chr12:16660410..16660434,+p@chr12:16660410..16660434
+
Mm9::chr12:16660574..16660581,+p@chr12:16660574..16660581
+
Mm9::chr12:16660603..16660614,+p@chr12:16660603..16660614
+
Mm9::chr15:99329929..99329942,-p@chr15:99329929..99329942
-
Mm9::chr18:25838692..25838704,-p@chr18:25838692..25838704
-
Mm9::chr18:38456462..38456473,+p4@Rnf14
Mm9::chr19:7053625..7053649,-p@chr19:7053625..7053649
-
Mm9::chr19:9209526..9209541,-p@chr19:9209526..9209541
-
Mm9::chr4:120689585..120689613,-p4@Smap2
Mm9::chr4:153400169..153400201,-p1@1190007F08Rik
Mm9::chr6:29346665..29346666,+p5@Ccdc136
Mm9::chr7:48157988..48158007,+p@chr7:48157988..48158007
+
Mm9::chr9:46721640..46721656,+p2@2900052N01Rik


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:0016492neurotensin receptor activity, G-protein coupled0.0394412483415015



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)5.46e-0923
neuroblast (sensu Vertebrata)5.46e-0923
neuron of the substantia nigra6.43e-083
raphe nuclei neuron7.10e-083
neural cell2.62e-0743
ectodermal cell4.58e-0744
neurectodermal cell4.58e-0744

Uber Anatomy
Ontology termp-valuen
regional part of nervous system3.81e-3354
central nervous system1.21e-3173
nervous system1.44e-3075
neural tube2.00e-2952
neural rod2.00e-2952
future spinal cord2.00e-2952
neural keel2.00e-2952
neurectoderm3.62e-2464
neural plate3.62e-2464
presumptive neural plate3.62e-2464
gray matter5.66e-2434
ectoderm-derived structure9.96e-2495
ectoderm9.96e-2495
presumptive ectoderm9.96e-2495
brain1.79e-2247
future brain1.79e-2247
regional part of brain4.39e-2146
ecto-epithelium3.15e-2073
occipital lobe1.00e-1810
visual cortex1.00e-1810
neocortex1.00e-1810
brain grey matter4.42e-1729
regional part of telencephalon4.42e-1729
telencephalon4.42e-1729
anterior neural tube1.25e-1640
structure with developmental contribution from neural crest1.42e-1592
regional part of forebrain3.58e-1539
forebrain3.58e-1539
future forebrain3.58e-1539
posterior neural tube1.02e-1412
chordal neural plate1.02e-1412
regional part of cerebral cortex1.15e-1417
pre-chordal neural plate5.17e-1449
cerebral cortex1.44e-1321
cerebral hemisphere1.44e-1321
pallium1.44e-1321
tube4.66e-11114
spinal cord6.35e-116
dorsal region element6.35e-116
dorsum6.35e-116
regional part of midbrain5.79e-104
midbrain5.79e-104
presumptive midbrain5.79e-104
midbrain neural tube5.79e-104
anatomical conduit7.91e-10122
regional part of spinal cord4.65e-095
gray matter of spinal cord4.65e-095
substantia nigra6.43e-083
telencephalic nucleus6.43e-083
midbrain nucleus6.43e-083
neural nucleus6.43e-083
nucleus of brain6.43e-083
raphe nuclei7.10e-083
reticular formation7.10e-083


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)
MA0003.12.03904
MA0004.14.48866
MA0006.10.118059
MA0007.10.64515
MA0009.10.623671
MA0014.11.12369
MA0017.10.135289
MA0019.10.456268
MA0024.10.582844
MA0025.10.845702
MA0027.12.24512
MA0028.10.786315
MA0029.10.562703
MA0030.10.568779
MA0031.10.535959
MA0038.10.358622
MA0040.10.635404
MA0041.10.18185
MA0042.10.172351
MA0043.10.71494
MA0046.10.657417
MA0048.11.52518
MA0050.10.270164
MA0051.10.366328
MA0052.10.642973
MA0055.10.381798
MA0056.10
MA0057.10.226212
MA0058.15.49269
MA0059.17.59156
MA0060.10.071412
MA0061.10.0877629
MA0063.10
MA0066.10.349199
MA0067.10.953264
MA0068.10.235061
MA0069.11.55187
MA0070.10.634186
MA0071.10.742345
MA0072.10.626238
MA0073.10.699224
MA0074.10.318792
MA0076.10.453214
MA0077.10.605975
MA0078.10.395048
MA0081.10.193203
MA0083.10.714187
MA0084.11.27474
MA0087.10.673355
MA0088.10.292366
MA0089.10
MA0090.10.610307
MA0091.10.24961
MA0092.10.213012
MA0093.14.90742
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.10.182791
MA0103.10.439015
MA0105.10.617024
MA0106.10.401864
MA0107.10.428571
MA0108.20.476838
MA0109.10
MA0111.10.223614
MA0113.10.983782
MA0114.10.609093
MA0115.10.717599
MA0116.10.756087
MA0117.10.686999
MA0119.10.53953
MA0122.10.705806
MA0124.10.901619
MA0125.10.830088
MA0130.10
MA0131.10.452196
MA0132.10
MA0133.10
MA0135.10.749615
MA0136.10.335579
MA0139.11.19638
MA0140.10.30902
MA0141.10.472769
MA0142.10.522654
MA0143.10.391481
MA0144.10.0881858
MA0145.10.320696
MA0146.14.63704
MA0147.13.54045
MA0148.10.252062
MA0149.10.18682
MA0062.20.154316
MA0035.20.312946
MA0039.20.466859
MA0138.20.445088
MA0002.21.21215
MA0137.20.467774
MA0104.22.36098
MA0047.20.357963
MA0112.22.42223
MA0065.21.15433
MA0150.10.227466
MA0151.10
MA0152.10.358055
MA0153.10.765498
MA0154.10.247047
MA0155.10.369691
MA0156.10.147567
MA0157.10.493416
MA0158.10
MA0159.10.679844
MA0160.10.707761
MA0161.10
MA0162.10.458181
MA0163.14.29643
MA0164.10.335886
MA0080.20.13897
MA0018.20.344133
MA0099.20.439458
MA0079.21.91318
MA0102.21.32652
MA0258.10.572032
MA0259.12.74845
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:491&oldid=3072490"