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MCL coexpression mm9:1769: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!5.62e-12!23;CL:0000337!5.62e-12!23;CL:0000540!7.00e-10!33;CL:0000047!7.00e-10!33;CL:0000031!7.00e-10!33;CL:0000404!7.00e-10!33;CL:0000221!6.13e-08!44;CL:0000133!6.13e-08!44;CL:0002319!8.42e-08!43;CL:0000393!6.16e-07!39;CL:0000211!6.16e-07!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!1.89e-26!64;UBERON:0003075!1.89e-26!64;UBERON:0007284!1.89e-26!64;UBERON:0004121!6.24e-24!95;UBERON:0000924!6.24e-24!95;UBERON:0006601!6.24e-24!95;UBERON:0001016!3.97e-22!75;UBERON:0001017!5.50e-22!73;UBERON:0000073!1.19e-21!54;UBERON:0003056!1.81e-21!49;UBERON:0010371!4.50e-21!73;UBERON:0010314!8.48e-21!92;UBERON:0001049!6.60e-20!52;UBERON:0005068!6.60e-20!52;UBERON:0006241!6.60e-20!52;UBERON:0007135!6.60e-20!52;UBERON:0000955!8.57e-17!47;UBERON:0006238!8.57e-17!47;UBERON:0002616!4.05e-16!46;UBERON:0003080!3.57e-15!40;UBERON:0002780!2.29e-14!39;UBERON:0001890!2.29e-14!39;UBERON:0006240!2.29e-14!39;UBERON:0002020!2.13e-11!34;UBERON:0003528!9.94e-09!29;UBERON:0002791!9.94e-09!29;UBERON:0001893!9.94e-09!29;UBERON:0000970!1.55e-07!9;UBERON:0000019!1.55e-07!9;UBERON:0000047!1.55e-07!9;UBERON:0010312!1.55e-07!9;UBERON:0004088!1.55e-07!9;UBERON:0002104!1.55e-07!9;UBERON:0001456!1.55e-07!9;UBERON:0003072!1.55e-07!9;UBERON:0004128!1.55e-07!9;UBERON:0003071!1.55e-07!9;UBERON:0001894!2.89e-07!10;UBERON:0006222!2.89e-07!10;UBERON:0002420!4.17e-07!8;UBERON:0007245!4.17e-07!8;UBERON:0010009!4.17e-07!8;UBERON:0010011!4.17e-07!8;UBERON:0000454!4.17e-07!8;UBERON:0000025!6.83e-07!114
}}

Latest revision as of 17:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr2:163149004..163149016,+p@chr2:163149004..163149016
+
Mm9::chr2:163149083..163149096,+p@chr2:163149083..163149096
+
Mm9::chr2:163149111..163149126,+p@chr2:163149111..163149126
+
Mm9::chr2:163149139..163149160,+p@chr2:163149139..163149160
+
Mm9::chr2:163149162..163149173,+p@chr2:163149162..163149173
+


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>

Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)5.62e-1223
neuroblast (sensu Vertebrata)5.62e-1223
neuron7.00e-1033
neuronal stem cell7.00e-1033
neuroblast7.00e-1033
electrically signaling cell7.00e-1033
ectodermal cell6.13e-0844
neurectodermal cell6.13e-0844
neural cell8.42e-0843
electrically responsive cell6.16e-0739
electrically active cell6.16e-0739

Uber Anatomy
Ontology termp-valuen
neurectoderm1.89e-2664
neural plate1.89e-2664
presumptive neural plate1.89e-2664
ectoderm-derived structure6.24e-2495
ectoderm6.24e-2495
presumptive ectoderm6.24e-2495
nervous system3.97e-2275
central nervous system5.50e-2273
regional part of nervous system1.19e-2154
pre-chordal neural plate1.81e-2149
ecto-epithelium4.50e-2173
structure with developmental contribution from neural crest8.48e-2192
neural tube6.60e-2052
neural rod6.60e-2052
future spinal cord6.60e-2052
neural keel6.60e-2052
brain8.57e-1747
future brain8.57e-1747
regional part of brain4.05e-1646
anterior neural tube3.57e-1540
regional part of forebrain2.29e-1439
forebrain2.29e-1439
future forebrain2.29e-1439
gray matter2.13e-1134
brain grey matter9.94e-0929
regional part of telencephalon9.94e-0929
telencephalon9.94e-0929
eye1.55e-079
camera-type eye1.55e-079
simple eye1.55e-079
immature eye1.55e-079
ocular region1.55e-079
visual system1.55e-079
face1.55e-079
optic cup1.55e-079
optic vesicle1.55e-079
eye primordium1.55e-079
diencephalon2.89e-0710
future diencephalon2.89e-0710
basal ganglion4.17e-078
nuclear complex of neuraxis4.17e-078
aggregate regional part of brain4.17e-078
collection of basal ganglia4.17e-078
cerebral subcortex4.17e-078
tube6.83e-07114


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)
MA0003.10.0833043
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.0502051
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
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
MA0048.10.205696
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.10.602741
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.955135
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.12.41915
MA0073.10.0176764
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.13.36511
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.12.79471
MA0101.10.523409
MA0103.11.16573
MA0105.10.693075
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.11.69206
MA0115.11.16466
MA0116.10.419688
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
MA0141.11.21195
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.157686
MA0146.10.21827
MA0147.10.378658
MA0148.11.50563
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.285933
MA0138.20.861035
MA0002.25.06175
MA0137.20.479301
MA0104.20.315156
MA0047.21.78778
MA0112.20.157681
MA0065.20.929207
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.203217
MA0155.11.57585
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.0699535
MA0163.10.0644585
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.20.0167818
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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