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MCL coexpression mm9:670: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!5.06e-26!44;CL:0000133!5.06e-26!44;CL:0002319!3.93e-25!43;CL:0000055!3.84e-21!49;CL:0000540!7.16e-19!33;CL:0000047!7.16e-19!33;CL:0000031!7.16e-19!33;CL:0000404!7.16e-19!33;CL:0000117!1.33e-15!23;CL:0000337!1.33e-15!23;CL:0000393!4.18e-15!39;CL:0000211!4.18e-15!39;CL:0002321!2.34e-10!70;CL:0000333!4.78e-07!10;CL:0000095!4.78e-07!10;CL:0000243!4.78e-07!10;CL:0000123!4.78e-07!10;CL:0000125!4.78e-07!10;CL:0000030!4.78e-07!10;CL:0000339!4.78e-07!10
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!2.85e-41!75;UBERON:0001017!1.66e-40!73;UBERON:0004121!8.93e-37!95;UBERON:0000924!8.93e-37!95;UBERON:0006601!8.93e-37!95;UBERON:0002346!1.22e-30!64;UBERON:0003075!1.22e-30!64;UBERON:0007284!1.22e-30!64;UBERON:0000073!3.59e-29!54;UBERON:0001049!2.38e-27!52;UBERON:0005068!2.38e-27!52;UBERON:0006241!2.38e-27!52;UBERON:0007135!2.38e-27!52;UBERON:0010371!1.41e-26!73;UBERON:0000955!3.36e-24!47;UBERON:0006238!3.36e-24!47;UBERON:0002616!1.39e-23!46;UBERON:0003056!5.08e-23!49;UBERON:0002020!7.69e-23!34;UBERON:0010314!4.77e-21!92;UBERON:0003080!9.65e-21!40;UBERON:0002780!2.25e-20!39;UBERON:0001890!2.25e-20!39;UBERON:0006240!2.25e-20!39;UBERON:0003528!1.51e-19!29;UBERON:0002791!1.51e-19!29;UBERON:0001893!1.51e-19!29;UBERON:0000956!1.65e-16!21;UBERON:0001869!1.65e-16!21;UBERON:0000203!1.65e-16!21;UBERON:0002619!2.08e-13!17;UBERON:0002021!1.92e-08!10;UBERON:0000411!1.92e-08!10;UBERON:0001950!1.92e-08!10;UBERON:0003076!4.37e-07!12;UBERON:0003057!4.37e-07!12
}}

Latest revision as of 15:41, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:78335687..78335701,-p16@Nr2f1
Mm9::chr13:78335738..78335747,-p24@Nr2f1
Mm9::chr13:78338057..78338069,-p11@Nr2f1
Mm9::chr13:78338076..78338104,-p4@Nr2f1
Mm9::chr13:78338274..78338297,+p@chr13:78338274..78338297
+
Mm9::chr13:78339382..78339420,-p3@Nr2f1
Mm9::chr13:78339428..78339466,-p2@Nr2f1
Mm9::chr13:78339476..78339515,-p1@Nr2f1
Mm9::chr13:78342691..78342713,-p@chr13:78342691..78342713
-
Mm9::chr17:56594384..56594396,-p@chr17:56594384..56594396
-
Mm9::chr1:42752559..42752566,+p3@Pou3f3


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>

Uber Anatomy
Ontology termp-valuen
nervous system2.85e-4175
central nervous system1.66e-4073
ectoderm-derived structure8.93e-3795
ectoderm8.93e-3795
presumptive ectoderm8.93e-3795
neurectoderm1.22e-3064
neural plate1.22e-3064
presumptive neural plate1.22e-3064
regional part of nervous system3.59e-2954
neural tube2.38e-2752
neural rod2.38e-2752
future spinal cord2.38e-2752
neural keel2.38e-2752
ecto-epithelium1.41e-2673
brain3.36e-2447
future brain3.36e-2447
regional part of brain1.39e-2346
pre-chordal neural plate5.08e-2349
gray matter7.69e-2334
structure with developmental contribution from neural crest4.77e-2192
anterior neural tube9.65e-2140
regional part of forebrain2.25e-2039
forebrain2.25e-2039
future forebrain2.25e-2039
brain grey matter1.51e-1929
regional part of telencephalon1.51e-1929
telencephalon1.51e-1929
cerebral cortex1.65e-1621
cerebral hemisphere1.65e-1621
pallium1.65e-1621
regional part of cerebral cortex2.08e-1317
occipital lobe1.92e-0810
visual cortex1.92e-0810
neocortex1.92e-0810
posterior neural tube4.37e-0712
chordal neural plate4.37e-0712


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)
MA0003.11.01144
MA0004.10.330313
MA0006.10.186435
MA0007.10.316976
MA0009.10.743257
MA0014.11.56158
MA0017.11.76941
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.11.56948
MA0038.10.462726
MA0040.10.755433
MA0041.10.263922
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.769903
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.279128
MA0056.10
MA0057.11.55717
MA0058.10.246908
MA0059.10.257372
MA0060.10.789184
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.735122
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.113.0885
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.760108
MA0083.11.95254
MA0084.11.4063
MA0087.10.794721
MA0088.10.12124
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.216742
MA0105.10.0759118
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.839864
MA0113.10.482899
MA0114.10.876865
MA0115.10.84036
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.103495
MA0140.10.408417
MA0141.10.233109
MA0142.10.63775
MA0143.10.49828
MA0144.10.452699
MA0145.12.25744
MA0146.10.529624
MA0147.10.157258
MA0148.10.912216
MA0149.10.269772
MA0062.20.0791588
MA0035.20.412747
MA0039.20.499196
MA0138.20.555696
MA0002.20.343346
MA0137.20.230686
MA0104.20.11535
MA0047.21.16804
MA0112.20.0329566
MA0065.20.905908
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.434137
MA0155.10.354827
MA0156.10.222905
MA0157.11.47574
MA0158.10
MA0159.10.957875
MA0160.10.347545
MA0161.10
MA0162.10.880756
MA0163.13.21929
MA0164.10.437937
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.215.8569
MA0102.21.45844
MA0258.10.135621
MA0259.10.14914
MA0442.10
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