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MCL coexpression mm9:1585: Difference between revisions

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{{MCL_coexpression_mm9
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phosphatase activity;0.000375173200338662;104015,269180!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.00180936514812023;104015,269180!GO:0006797;polyphosphate metabolic process;0.00761518654467758;269180!GO:0017120;polyphosphoinositide phosphatase activity;0.00761518654467758;104015!GO:0006798;polyphosphate catabolic process;0.00761518654467758;269180!GO:0016316;phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity;0.0126905868252215;269180!GO:0001675;acrosome formation;0.0142753457569309;18472!GO:0008090;retrograde axon cargo transport;0.0142753457569309;18472!GO:0047496;vesicle transport along microtubule;0.0186535788948009;18472!GO:0004439;phosphoinositide 5-phosphatase activity;0.0186535788948009;104015!GO:0016791;phosphoric monoester hydrolase activity;0.0186535788948009;104015,269180!GO:0042578;phosphoric ester hydrolase activity;0.0272791496909187;104015,269180!GO:0008088;axon cargo 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|gostat_on_MCL_coexpression=GO:0042577;lipid phosphatase activity;0.000375173200338662;104015,269180!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.00180936514812023;104015,269180!GO:0006797;polyphosphate metabolic process;0.00761518654467758;269180!GO:0017120;polyphosphoinositide phosphatase activity;0.00761518654467758;104015!GO:0006798;polyphosphate catabolic process;0.00761518654467758;269180!GO:0016316;phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity;0.0126905868252215;269180!GO:0001675;acrosome formation;0.0142753457569309;18472!GO:0008090;retrograde axon cargo transport;0.0142753457569309;18472!GO:0047496;vesicle transport along microtubule;0.0186535788948009;18472!GO:0004439;phosphoinositide 5-phosphatase activity;0.0186535788948009;104015!GO:0016791;phosphoric monoester hydrolase activity;0.0186535788948009;104015,269180!GO:0042578;phosphoric ester hydrolase activity;0.0272791496909187;104015,269180!GO:0008088;axon cargo transport;0.0292603068847647;18472!
|ontology_enrichment_celltype=CL:0000117!6.74e-10!23;CL:0000337!6.74e-10!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.21e-13!54;UBERON:0001049!1.31e-12!52;UBERON:0005068!1.31e-12!52;UBERON:0006241!1.31e-12!52;UBERON:0007135!1.31e-12!52;UBERON:0002020!1.57e-12!34;UBERON:0000955!2.99e-10!47;UBERON:0006238!2.99e-10!47;UBERON:0003528!3.22e-10!29;UBERON:0002791!3.22e-10!29;UBERON:0001893!3.22e-10!29;UBERON:0002616!6.99e-10!46;UBERON:0003080!3.89e-09!40;UBERON:0002346!8.25e-09!64;UBERON:0003075!8.25e-09!64;UBERON:0007284!8.25e-09!64;UBERON:0002780!1.35e-08!39;UBERON:0001890!1.35e-08!39;UBERON:0006240!1.35e-08!39;UBERON:0001017!1.74e-08!73;UBERON:0001016!1.14e-07!75;UBERON:0010371!2.06e-07!73;UBERON:0000064!3.35e-07!99;UBERON:0003056!4.29e-07!49
}}

Latest revision as of 17:10, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:74537834..74537895,-p1@Pafah1b1
Mm9::chr16:91011274..91011314,-p1@Synj1
Mm9::chr16:93712169..93712182,+p2@Dopey2
Mm9::chr1:37356727..37356782,+p1@Inpp4a
Mm9::chr4:120689806..120689866,-p1@Smap2


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:0042577lipid phosphatase activity0.000375173200338662
GO:0004437inositol or phosphatidylinositol phosphatase activity0.00180936514812023
GO:0006797polyphosphate metabolic process0.00761518654467758
GO:0017120polyphosphoinositide phosphatase activity0.00761518654467758
GO:0006798polyphosphate catabolic process0.00761518654467758
GO:0016316phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity0.0126905868252215
GO:0001675acrosome formation0.0142753457569309
GO:0008090retrograde axon cargo transport0.0142753457569309
GO:0047496vesicle transport along microtubule0.0186535788948009
GO:0004439phosphoinositide 5-phosphatase activity0.0186535788948009
GO:0016791phosphoric monoester hydrolase activity0.0186535788948009
GO:0042578phosphoric ester hydrolase activity0.0272791496909187
GO:0008088axon cargo transport0.0292603068847647



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)6.74e-1023
neuroblast (sensu Vertebrata)6.74e-1023

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.21e-1354
neural tube1.31e-1252
neural rod1.31e-1252
future spinal cord1.31e-1252
neural keel1.31e-1252
gray matter1.57e-1234
brain2.99e-1047
future brain2.99e-1047
brain grey matter3.22e-1029
regional part of telencephalon3.22e-1029
telencephalon3.22e-1029
regional part of brain6.99e-1046
anterior neural tube3.89e-0940
neurectoderm8.25e-0964
neural plate8.25e-0964
presumptive neural plate8.25e-0964
regional part of forebrain1.35e-0839
forebrain1.35e-0839
future forebrain1.35e-0839
central nervous system1.74e-0873
nervous system1.14e-0775
ecto-epithelium2.06e-0773
organ part3.35e-0799
pre-chordal neural plate4.29e-0749


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)
MA0003.12.77888
MA0004.10.603793
MA0006.10.419915
MA0007.11.43525
MA0009.11.06266
MA0014.12.11217
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.11.10192
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.11.12075
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.10.0851423
MA0056.10
MA0057.10.562607
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.12.86731
MA0074.11.68683
MA0076.11.1853
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.453686
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.11.89177
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.295945
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.956957
MA0145.10.927481
MA0146.12.90489
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.22.81639
MA0035.20.700704
MA0039.26.31018
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.845917
MA0047.20.75686
MA0112.20.157681
MA0065.20.929207
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.587595
MA0155.11.57585
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.11.01146
MA0160.10.624415
MA0161.10
MA0162.12.45609
MA0163.10.497328
MA0164.10.729558
MA0080.20.455167
MA0018.21.75252
MA0099.20.854449
MA0079.26.97067
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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