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MCL coexpression mm9:571: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
}}

Latest revision as of 15:31, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:112597483..112597500,+p@chr13:112597483..112597500
+
Mm9::chr13:112768168..112768198,+p@chr13:112768168..112768198
+
Mm9::chr13:112774257..112774268,-p@chr13:112774257..112774268
-
Mm9::chr13:112774486..112774496,+p@chr13:112774486..112774496
+
Mm9::chr13:112791448..112791460,-p@chr13:112791448..112791460
-
Mm9::chr13:112791623..112791634,+p@chr13:112791623..112791634
+
Mm9::chr13:112792109..112792132,+p@chr13:112792109..112792132
+
Mm9::chr14:122338220..122338258,+p@chr14:122338220..122338258
+
Mm9::chr1:130487882..130487893,+p@chr1:130487882..130487893
+
Mm9::chr2:57091169..57091175,-p2@ENSMUST00000146529
p2@ENSMUST00000156418
p2@uc008jsa.1
Mm9::chr5:112705390..112705402,-p@chr5:112705390..112705402
-
Mm9::chr5:149827693..149827716,+p@chr5:149827693..149827716
+
Mm9::chr9:116084406..116084415,+p@chr9:116084406..116084415
+


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 cell1.55e-2632
hematopoietic oligopotent progenitor cell1.55e-2632
hematopoietic stem cell1.55e-2632
angioblastic mesenchymal cell1.55e-2632
hematopoietic multipotent progenitor cell1.55e-2632
hematopoietic lineage restricted progenitor cell2.84e-2425
lymphoid lineage restricted progenitor cell5.34e-2412
lymphocyte5.34e-2213
common lymphoid progenitor5.34e-2213
T cell3.78e-2111
pro-T cell3.78e-2111
nucleate cell1.70e-1716
connective tissue cell3.14e-1746
mesenchymal cell3.14e-1746
leukocyte2.38e-1617
nongranular leukocyte2.38e-1617
mature alpha-beta T cell2.38e-169
alpha-beta T cell2.38e-169
immature T cell2.38e-169
mature T cell2.38e-169
immature alpha-beta T cell2.38e-169
motile cell4.42e-1454
CD4-positive, alpha-beta T cell1.14e-138
megakaryocyte progenitor cell3.23e-126
megakaryocyte3.23e-126
stem cell3.62e-1097
common myeloid progenitor1.64e-0819
thymocyte1.64e-086
double negative thymocyte1.64e-086
naive T cell1.64e-086
double-positive, alpha-beta thymocyte1.64e-086
CD4-positive, alpha-beta thymocyte1.64e-086
naive thymus-derived CD4-positive, alpha-beta T cell1.64e-086
DN4 thymocyte1.64e-086
DN1 thymic pro-T cell1.64e-086
DN2 thymocyte1.64e-086
DN3 thymocyte1.64e-086
immature single positive thymocyte1.64e-086
early T lineage precursor1.64e-086
mature CD4 single-positive thymocyte1.64e-086
resting double-positive thymocyte1.64e-086
double-positive blast1.64e-086
CD69-positive double-positive thymocyte1.64e-086
CD69-positive, CD4-positive single-positive thymocyte1.64e-086
CD4-positive, CD8-intermediate double-positive thymocyte1.64e-086
CD24-positive, CD4 single-positive thymocyte1.64e-086
megakaryocyte-erythroid progenitor cell4.95e-089
somatic stem cell9.80e-0891
multi fate stem cell9.80e-0891

Uber Anatomy
Ontology termp-valuen
connective tissue3.14e-1746
hematopoietic system2.01e-1645
blood island2.01e-1645
hemolymphoid system3.73e-1548
immune system3.73e-1548
thymus6.30e-1523
neck6.30e-1523
respiratory system epithelium6.30e-1523
hemolymphoid system gland6.30e-1523
pharyngeal epithelium6.30e-1523
thymic region6.30e-1523
pharyngeal gland6.30e-1523
entire pharyngeal arch endoderm6.30e-1523
thymus primordium6.30e-1523
early pharyngeal endoderm6.30e-1523
pharynx3.32e-1424
gland of gut3.32e-1424
upper respiratory tract3.32e-1424
chordate pharynx3.32e-1424
pharyngeal arch system3.32e-1424
pharyngeal region of foregut3.32e-1424
segment of respiratory tract2.31e-1227
hemopoietic organ2.40e-1129
immune organ2.40e-1129
mixed endoderm/mesoderm-derived structure5.33e-0935
organ segment5.33e-0935
craniocervical region1.10e-0836
lateral plate mesoderm1.40e-0787
respiratory tract2.40e-0741
respiratory system4.06e-0742
anterior region of body6.71e-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)
MA0003.10.235152
MA0004.10.279808
MA0006.10.14766
MA0007.10.737361
MA0009.10.678286
MA0014.10.00936227
MA0017.10.166909
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.470606
MA0029.10.616052
MA0030.10.622264
MA0031.11.43735
MA0038.10.405578
MA0040.10.690239
MA0041.10.218039
MA0042.10.598261
MA0043.10.771094
MA0046.10.712646
MA0048.10.602366
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.11.06788
MA0056.10
MA0057.10.127633
MA0058.10.202403
MA0059.10.212009
MA0060.10.0941959
MA0061.10.363764
MA0063.10
MA0066.11.02437
MA0067.11.01206
MA0068.10.312793
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.10.000259455
MA0074.10.363923
MA0076.10.181159
MA0077.10.660245
MA0078.10.443468
MA0081.10.230351
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.204026
MA0089.10
MA0090.10.251458
MA0091.10.791063
MA0092.11.29646
MA0093.10.161141
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.519343
MA0105.10.760871
MA0106.10.450539
MA0107.10.170338
MA0108.20.527977
MA0109.10
MA0111.10.263095
MA0113.10.424958
MA0114.10.111687
MA0115.10.773793
MA0116.10.147513
MA0117.10.742722
MA0119.10.626271
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.10.502588
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.38151
MA0139.10.0756871
MA0140.10.931776
MA0141.10.555407
MA0142.11.40862
MA0143.10.439766
MA0144.10.1137
MA0145.10.4279
MA0146.10.11048
MA0147.10.121834
MA0148.10.293462
MA0149.10.223436
MA0062.20.204154
MA0035.20.357786
MA0039.20.290079
MA0138.20.495254
MA0002.20.955286
MA0137.20.187581
MA0104.20.0856657
MA0047.21.04434
MA0112.20.0892873
MA0065.20.0203041
MA0150.10.267221
MA0151.10
MA0152.10.404987
MA0153.11.92276
MA0154.10.139881
MA0155.10.258579
MA0156.10.532949
MA0157.11.34519
MA0158.10
MA0159.10.403827
MA0160.10.296006
MA0161.10
MA0162.10.137604
MA0163.10.0025245
MA0164.10.993886
MA0080.20.509758
MA0018.20.390455
MA0099.20.489441
MA0079.20.00140723
MA0102.21.38728
MA0258.10.103004
MA0259.10.367748
MA0442.10
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