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MCL coexpression mm9:1237: Difference between revisions

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{{MCL_coexpression_mm9
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foregut morphogenesis;0.0274254607533146;74123!GO:0007440;foregut morphogenesis;0.0274254607533146;74123!GO:0048613;embryonic ectodermal gut morphogenesis;0.0274254607533146;74123!GO:0048611;embryonic ectodermal gut development;0.0274254607533146;74123!GO:0048558;embryonic gut morphogenesis;0.0274254607533146;74123!GO:0048557;embryonic digestive tract morphogenesis;0.0274254607533146;74123!GO:0007439;ectodermal gut development;0.0274254607533146;74123!GO:0048567;ectodermal gut morphogenesis;0.0274254607533146;74123!GO:0048547;gut morphogenesis;0.0274254607533146;74123!GO:0048566;embryonic gut development;0.0274254607533146;74123!GO:0048546;digestive tract morphogenesis;0.0274254607533146;74123!GO:0004864;protein phosphatase inhibitor activity;0.0309339166018306;74189!GO:0048565;gut development;0.031478544579051;74123!GO:0019212;phosphatase inhibitor activity;0.031478544579051;74189!GO:0048562;embryonic organ morphogenesis;0.0324672658235487;74123!GO:0019888;protein phosphatase regulator activity;0.0449732511525825;74189!GO:0005834;heterotrimeric G-protein complex;0.0449732511525825;14693!GO:0019208;phosphatase regulator activity;0.0450415573124482;74189!GO:0048568;embryonic organ 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|gostat_on_MCL_coexpression=GO:0048617;embryonic foregut morphogenesis;0.0274254607533146;74123!GO:0007440;foregut morphogenesis;0.0274254607533146;74123!GO:0048613;embryonic ectodermal gut morphogenesis;0.0274254607533146;74123!GO:0048611;embryonic ectodermal gut development;0.0274254607533146;74123!GO:0048558;embryonic gut morphogenesis;0.0274254607533146;74123!GO:0048557;embryonic digestive tract morphogenesis;0.0274254607533146;74123!GO:0007439;ectodermal gut development;0.0274254607533146;74123!GO:0048567;ectodermal gut morphogenesis;0.0274254607533146;74123!GO:0048547;gut morphogenesis;0.0274254607533146;74123!GO:0048566;embryonic gut development;0.0274254607533146;74123!GO:0048546;digestive tract morphogenesis;0.0274254607533146;74123!GO:0004864;protein phosphatase inhibitor activity;0.0309339166018306;74189!GO:0048565;gut development;0.031478544579051;74123!GO:0019212;phosphatase inhibitor activity;0.031478544579051;74189!GO:0048562;embryonic organ morphogenesis;0.0324672658235487;74123!GO:0019888;protein phosphatase regulator activity;0.0449732511525825;74189!GO:0005834;heterotrimeric G-protein complex;0.0449732511525825;14693!GO:0019208;phosphatase regulator activity;0.0450415573124482;74189!GO:0048568;embryonic organ development;0.0451018725408811;74123!
}}

Latest revision as of 16:36, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:20672299..20672310,+p5@Ahi1
Mm9::chr16:72027752..72027771,+p@chr16:72027752..72027771
+
Mm9::chr17:48015995..48016037,-p12@Foxp4
Mm9::chr2:178062247..178062272,+p5@Phactr3
Mm9::chr2:32178983..32179012,-p@chr2:32178983..32179012
-
Mm9::chr5:137972432..137972464,-p15@Gnb2


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:0048617embryonic foregut morphogenesis0.0274254607533146
GO:0007440foregut morphogenesis0.0274254607533146
GO:0048613embryonic ectodermal gut morphogenesis0.0274254607533146
GO:0048611embryonic ectodermal gut development0.0274254607533146
GO:0048558embryonic gut morphogenesis0.0274254607533146
GO:0048557embryonic digestive tract morphogenesis0.0274254607533146
GO:0007439ectodermal gut development0.0274254607533146
GO:0048567ectodermal gut morphogenesis0.0274254607533146
GO:0048547gut morphogenesis0.0274254607533146
GO:0048566embryonic gut development0.0274254607533146
GO:0048546digestive tract morphogenesis0.0274254607533146
GO:0004864protein phosphatase inhibitor activity0.0309339166018306
GO:0048565gut development0.031478544579051
GO:0019212phosphatase inhibitor activity0.031478544579051
GO:0048562embryonic organ morphogenesis0.0324672658235487
GO:0019888protein phosphatase regulator activity0.0449732511525825
GO:0005834heterotrimeric G-protein complex0.0449732511525825
GO:0019208phosphatase regulator activity0.0450415573124482
GO:0048568embryonic organ development0.0451018725408811



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)3.18e-1923
neuroblast (sensu Vertebrata)3.18e-1923
neuron1.23e-1133
neuronal stem cell1.23e-1133
neuroblast1.23e-1133
electrically signaling cell1.23e-1133
electrically responsive cell1.45e-0839
electrically active cell1.45e-0839
ectodermal cell2.85e-0744
neurectodermal cell2.85e-0744
neural cell4.78e-0743

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.83e-2354
neural tube2.75e-2352
neural rod2.75e-2352
future spinal cord2.75e-2352
neural keel2.75e-2352
neurectoderm1.23e-2164
neural plate1.23e-2164
presumptive neural plate1.23e-2164
gray matter5.65e-2134
central nervous system6.63e-2073
nervous system6.77e-1975
brain9.79e-1947
future brain9.79e-1947
ecto-epithelium1.84e-1873
regional part of brain4.24e-1846
pre-chordal neural plate1.86e-1749
anterior neural tube3.02e-1740
regional part of forebrain2.08e-1639
forebrain2.08e-1639
future forebrain2.08e-1639
brain grey matter2.80e-1629
regional part of telencephalon2.80e-1629
telencephalon2.80e-1629
ectoderm-derived structure4.88e-1695
ectoderm4.88e-1695
presumptive ectoderm4.88e-1695
structure with developmental contribution from neural crest5.49e-1592
cerebral cortex1.13e-0921
cerebral hemisphere1.13e-0921
pallium1.13e-0921
basal ganglion2.31e-088
nuclear complex of neuraxis2.31e-088
aggregate regional part of brain2.31e-088
collection of basal ganglia2.31e-088
cerebral subcortex2.31e-088
regional part of cerebral cortex3.31e-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)
MA0003.10.04894
MA0004.10.536396
MA0006.10.945134
MA0007.10.52077
MA0009.10.987341
MA0014.10.12867
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.969171
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.11.02391
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.465302
MA0056.10
MA0057.10.895081
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.11.49922
MA0063.10
MA0066.12.72895
MA0067.11.33603
MA0068.14.40866
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.115.3036
MA0074.10.638014
MA0076.11.04996
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.358337
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.11.51574
MA0101.10.458688
MA0103.10.398766
MA0105.11.72386
MA0106.10.737893
MA0107.11.0169
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.10.682297
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.761789
MA0146.10.0392287
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.21.11803
MA0035.20.630778
MA0039.21.05907
MA0138.20.788113
MA0002.20.246463
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.119197
MA0065.20.119561
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.480757
MA0155.10.132921
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.11.53386
MA0163.10.664494
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.24.96575
MA0102.21.7182
MA0258.10.290587
MA0259.10.309517
MA0442.10
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