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MCL coexpression mm9:659: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
}}

Latest revision as of 15:40, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:69734729..69734745,-p2@Eif5a
Mm9::chr13:117814641..117814661,-p5@Parp8
Mm9::chr14:75578208..75578243,-p@chr14:75578208..75578243
-
Mm9::chr14:75579064..75579079,-p@chr14:75579064..75579079
-
Mm9::chr15:80085920..80085941,+p1@Atf4
Mm9::chr17:35337680..35337691,+p@chr17:35337680..35337691
+
Mm9::chr1:58784094..58784105,+p@chr1:58784094..58784105
+
Mm9::chr4:107552410..107552428,+p2@Magoh
Mm9::chr4:107552434..107552445,+p3@Magoh
Mm9::chr5:3543862..3543884,+p2@Fam133b
Mm9::chr9:107192037..107192117,-p1@Mapkapk3


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
hematopoietic cell2.40e-1632
hematopoietic oligopotent progenitor cell2.40e-1632
hematopoietic stem cell2.40e-1632
angioblastic mesenchymal cell2.40e-1632
hematopoietic multipotent progenitor cell2.40e-1632
lymphoid lineage restricted progenitor cell3.81e-1212
hematopoietic lineage restricted progenitor cell2.24e-1125
T cell2.66e-1111
pro-T cell2.66e-1111
lymphocyte3.35e-1113
common lymphoid progenitor3.35e-1113
connective tissue cell3.68e-1146
mesenchymal cell3.68e-1146
leukocyte7.87e-1017
nongranular leukocyte7.87e-1017
mature alpha-beta T cell1.38e-099
alpha-beta T cell1.38e-099
immature T cell1.38e-099
mature T cell1.38e-099
immature alpha-beta T cell1.38e-099
nucleate cell4.52e-0916
CD4-positive, alpha-beta T cell1.08e-088
motile cell2.86e-0754
thymocyte4.68e-076
double negative thymocyte4.68e-076
naive T cell4.68e-076
double-positive, alpha-beta thymocyte4.68e-076
CD4-positive, alpha-beta thymocyte4.68e-076
naive thymus-derived CD4-positive, alpha-beta T cell4.68e-076
DN4 thymocyte4.68e-076
DN1 thymic pro-T cell4.68e-076
DN2 thymocyte4.68e-076
DN3 thymocyte4.68e-076
immature single positive thymocyte4.68e-076
early T lineage precursor4.68e-076
mature CD4 single-positive thymocyte4.68e-076
resting double-positive thymocyte4.68e-076
double-positive blast4.68e-076
CD69-positive double-positive thymocyte4.68e-076
CD69-positive, CD4-positive single-positive thymocyte4.68e-076
CD4-positive, CD8-intermediate double-positive thymocyte4.68e-076
CD24-positive, CD4 single-positive thymocyte4.68e-076
common myeloid progenitor4.73e-0719

Uber Anatomy
Ontology termp-valuen
hematopoietic system3.09e-1845
blood island3.09e-1845
hemolymphoid system3.79e-1848
immune system3.79e-1848
hemopoietic organ7.70e-1529
immune organ7.70e-1529
segment of respiratory tract1.65e-1227
thymus2.55e-1223
neck2.55e-1223
respiratory system epithelium2.55e-1223
hemolymphoid system gland2.55e-1223
pharyngeal epithelium2.55e-1223
thymic region2.55e-1223
pharyngeal gland2.55e-1223
entire pharyngeal arch endoderm2.55e-1223
thymus primordium2.55e-1223
early pharyngeal endoderm2.55e-1223
mixed endoderm/mesoderm-derived structure3.35e-1235
pharynx8.89e-1224
gland of gut8.89e-1224
upper respiratory tract8.89e-1224
chordate pharynx8.89e-1224
pharyngeal arch system8.89e-1224
pharyngeal region of foregut8.89e-1224
connective tissue3.68e-1146
gut epithelium2.35e-0855
lateral plate mesoderm2.94e-0887
foregut3.69e-0880
organ segment6.76e-0835
respiratory tract7.39e-0841
unilaminar epithelium1.07e-0766
respiratory system1.20e-0742
craniocervical region1.33e-0736
anterior region of body2.06e-0743


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)
MA0003.10.156602
MA0004.11.58202
MA0006.10.547312
MA0007.10.850001
MA0009.10.743257
MA0014.10.0633827
MA0017.10.207884
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.567414
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
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
MA0055.10.735247
MA0056.10
MA0057.10.71676
MA0058.11.9784
MA0059.10.257372
MA0060.10.395347
MA0061.10.147394
MA0063.10
MA0066.11.1475
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.11.39513
MA0074.10.419185
MA0076.10.635923
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.28966
MA0089.10
MA0090.10.299987
MA0091.10.906056
MA0092.10.300264
MA0093.11.73415
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.216742
MA0105.10.0759118
MA0106.10.509454
MA0107.10.211681
MA0108.21.4389
MA0109.10
MA0111.10.839864
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.10.546914
MA0117.10.808813
MA0119.10.733279
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.11.11539
MA0139.10.690248
MA0140.10.408417
MA0141.10.233109
MA0142.10.63775
MA0143.10.49828
MA0144.10.147954
MA0145.10.133285
MA0146.10.183077
MA0147.10.157258
MA0148.10.344843
MA0149.10.269772
MA0062.20.968877
MA0035.20.412747
MA0039.20.879311
MA0138.20.555696
MA0002.20.343346
MA0137.20.230686
MA0104.20.369356
MA0047.20.46201
MA0112.20.9035
MA0065.20.314773
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.195907
MA0155.10.637282
MA0156.10.634231
MA0157.10.606944
MA0158.10
MA0159.10.165031
MA0160.10.347545
MA0161.10
MA0162.11.19805
MA0163.10.0916052
MA0164.10.437937
MA0080.20.609443
MA0018.20.446948
MA0099.21.35508
MA0079.20.773479
MA0102.21.45844
MA0258.10.421574
MA0259.10.891672
MA0442.10
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