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MCL coexpression mm9:1657: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.0527413783866199,0,0,0.0686377264886741,0.0333321253665857,0.180011747370744,0.0699790221274244,0,0.147661033956106,0.380052651166226,0.168259719722084,0.189899355668011,0.153628809860867,0,0,0.100783889465809,0,0,0,0,0,0.0755555083173967,0,0,0.96639513441845,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.236880264493592,0,0,0,0,0.0800187930544913,0,0,0,0,0,0,0,0,0,0.0428469550828748,0,0,0,0.0866689030825281,0.0951629323478916,0,0,0,0.0987733636723519,0,0,0,0,0,0,0.0617533076901792,0,0,0,0,0.0316393102377815,0.198582584603541,0.269611904680974,0,0,0,0,0,0,0,0,0,0,0,0,0.156240760022301,0.178032475525152,0.177687811491981,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.742233111832709,0.319691257886324,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.159558743882546,0.160939271735563,0.223116375031613,0,0,0,0,0,0,0,0,0.663598871080079,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0002031!5.41e-23!25;CL:0000988!3.02e-17!32;CL:0002032!3.02e-17!32;CL:0000037!3.02e-17!32;CL:0000566!3.02e-17!32;CL:0000837!3.02e-17!32;CL:0000548!6.49e-17!115;CL:0000255!6.49e-17!115;CL:0002371!2.45e-16!118;CL:0000034!8.45e-15!97;CL:0002320!9.77e-15!46;CL:0000134!9.77e-15!46;CL:0000839!6.51e-14!13;CL:0000219!1.58e-13!54;CL:0000553!3.41e-12!6;CL:0000556!3.41e-12!6;CL:0000738!5.30e-12!17;CL:0002087!5.30e-12!17;CL:0000723!8.62e-12!91;CL:0000048!8.62e-12!91;CL:0000624!9.64e-12!8;CL:0000050!1.52e-11!9;CL:0000084!2.65e-11!11;CL:0000827!2.65e-11!11;CL:0000763!4.78e-11!16;CL:0000791!2.26e-10!9;CL:0000789!2.26e-10!9;CL:0002420!2.26e-10!9;CL:0002419!2.26e-10!9;CL:0000790!2.26e-10!9;CL:0000838!2.75e-10!12;CL:0002242!5.40e-10!16;CL:0000349!1.80e-09!3;CL:0000351!1.80e-09!3;CL:0000542!2.00e-09!13;CL:0000051!2.00e-09!13;CL:0000068!2.19e-09!3;CL:0002202!2.19e-09!3;CL:0000069!2.19e-09!3;CL:0002632!2.19e-09!3;CL:0002368!2.19e-09!3;CL:0000307!2.19e-09!3;CL:0000377!2.19e-09!3;CL:0000049!4.36e-09!19;CL:0002476!2.08e-07!2;CL:0000893!2.71e-07!6;CL:0002489!2.71e-07!6;CL:0000898!2.71e-07!6;CL:0000809!2.71e-07!6;CL:0000810!2.71e-07!6;CL:0000895!2.71e-07!6;CL:0000808!2.71e-07!6;CL:0000894!2.71e-07!6;CL:0000806!2.71e-07!6;CL:0000807!2.71e-07!6;CL:0000805!2.71e-07!6;CL:0002425!2.71e-07!6;CL:0002436!2.71e-07!6;CL:0002427!2.71e-07!6;CL:0002428!2.71e-07!6;CL:0002429!2.71e-07!6;CL:0002433!2.71e-07!6;CL:0002431!2.71e-07!6;CL:0002432!2.71e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!9.77e-15!46;UBERON:0000358!1.80e-09!3;UBERON:0000307!1.80e-09!3;UBERON:0007010!1.80e-09!3;UBERON:0003126!2.19e-09!3;UBERON:0001005!2.19e-09!3;UBERON:0007196!2.19e-09!3;UBERON:0001558!2.19e-09!3;UBERON:0002371!2.21e-08!16
}}

Latest revision as of 17:17, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:93581759..93581760,+p@chr13:93581759..93581760
+
Mm9::chr15:7166338..7166339,+p@chr15:7166338..7166339
+
Mm9::chr2:87685501..87685502,+p@chr2:87685501..87685502
+
Mm9::chr3:40358765..40358766,+p@chr3:40358765..40358766
+
Mm9::chr7:19827477..19827480,+p1@ENSMUST00000082646


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 lineage restricted progenitor cell5.41e-2325
hematopoietic cell3.02e-1732
hematopoietic oligopotent progenitor cell3.02e-1732
hematopoietic stem cell3.02e-1732
angioblastic mesenchymal cell3.02e-1732
hematopoietic multipotent progenitor cell3.02e-1732
animal cell6.49e-17115
eukaryotic cell6.49e-17115
somatic cell2.45e-16118
stem cell8.45e-1597
connective tissue cell9.77e-1546
mesenchymal cell9.77e-1546
myeloid lineage restricted progenitor cell6.51e-1413
motile cell1.58e-1354
megakaryocyte progenitor cell3.41e-126
megakaryocyte3.41e-126
leukocyte5.30e-1217
nongranular leukocyte5.30e-1217
somatic stem cell8.62e-1291
multi fate stem cell8.62e-1291
CD4-positive, alpha-beta T cell9.64e-128
megakaryocyte-erythroid progenitor cell1.52e-119
T cell2.65e-1111
pro-T cell2.65e-1111
myeloid cell4.78e-1116
mature alpha-beta T cell2.26e-109
alpha-beta T cell2.26e-109
immature T cell2.26e-109
mature T cell2.26e-109
immature alpha-beta T cell2.26e-109
lymphoid lineage restricted progenitor cell2.75e-1012
nucleate cell5.40e-1016
extraembryonic cell1.80e-093
trophoblast cell1.80e-093
lymphocyte2.00e-0913
common lymphoid progenitor2.00e-0913
duct epithelial cell2.19e-093
epithelial cell of tracheobronchial tree2.19e-093
branched duct epithelial cell2.19e-093
epithelial cell of lower respiratory tract2.19e-093
respiratory epithelial cell2.19e-093
tracheal epithelial cell2.19e-093
tracheoblast2.19e-093
common myeloid progenitor4.36e-0919
bone marrow macrophage2.08e-072
thymocyte2.71e-076
double negative thymocyte2.71e-076
naive T cell2.71e-076
double-positive, alpha-beta thymocyte2.71e-076
CD4-positive, alpha-beta thymocyte2.71e-076
naive thymus-derived CD4-positive, alpha-beta T cell2.71e-076
DN4 thymocyte2.71e-076
DN1 thymic pro-T cell2.71e-076
DN2 thymocyte2.71e-076
DN3 thymocyte2.71e-076
immature single positive thymocyte2.71e-076
early T lineage precursor2.71e-076
mature CD4 single-positive thymocyte2.71e-076
resting double-positive thymocyte2.71e-076
double-positive blast2.71e-076
CD69-positive double-positive thymocyte2.71e-076
CD69-positive, CD4-positive single-positive thymocyte2.71e-076
CD4-positive, CD8-intermediate double-positive thymocyte2.71e-076
CD24-positive, CD4 single-positive thymocyte2.71e-076

Uber Anatomy
Ontology termp-valuen
connective tissue9.77e-1546
blastocyst1.80e-093
blastula1.80e-093
cleaving embryo1.80e-093
trachea2.19e-093
respiratory airway2.19e-093
tracheobronchial tree2.19e-093
lower respiratory tract2.19e-093
bone marrow2.21e-0816


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)
MA0003.10.0185483
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
MA0055.10.0851423
MA0056.10
MA0057.10.562607
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.0481612
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
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
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
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
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.157686
MA0146.10.0604336
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.0511423
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.315156
MA0047.20.75686
MA0112.20.157681
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.203217
MA0155.10.173445
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
MA0079.20.00167664
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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