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MCL coexpression mm9:766: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!4.55e-08!46
|tfbs_overrepresentation_for_novel_motifs=0.354643,0.227469,0.330161,0.394491,0.227651,0.40827,1.24018,0.146465,0.468136,0.904288,0.453212,0.484001,0.88117,0.507558,0.24249,0,0.696644,0.22065,0.134657,0.0703872,0.296085,0.713323,0.50668,0.226287,0.337218,1.32254,0.128175,0.428336,0.739731,0.319094,1.06602,0.796599,0.218674,0.113369,0.242923,0.00999634,0.604998,0.480503,0.559915,0.167387,0.224094,0.419787,0.0422275,0.244285,0.536558,0.383899,0.618203,1.12809,0.133514,0.745859,0.679429,0.560572,0.30602,0.937018,0.954342,0.514504,0.279148,0.471658,0.12126,0.512521,0.776777,0.569793,0.492158,0.668331,1.30341,1.68713,1.08987,1.43807,0.772155,1.29123,0.840217,0.151245,0.745723,0.987652,0.748687,1.71614,0.113315,0.607043,0.759798,0.299972,0.152219,1.6986,0.568383,0.14134,0.873141,3.27987,0.092683,0.0965007,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.551605,0.17334,0.14449,0.812053,1.49989,0.278788,0.210602,0.796322,0.919715,0.680015,0.678976,1.07585,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.301014,0.458194,1.16629,0.222515,1.57752,1.02946,0.697928,0.207304,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,0.387557,1.05894,0.527782,1.18781,0.177062,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,1.07771,0.621266,1.92834,0.364791,0.649035,1.10522,1.94547,0.938577,1.01208,0.526881,1.01974,0.561556,0.253271,0.352329,2.55408,1.1483,0.872292,0.763895,0.914544,0.669337,0.519673,0.602679,1.21195,3.61448
|tfbs_overrepresentation_jaspar=MA0003.1;1.84202,MA0004.1;0.394951,MA0006.1;0.238555,MA0007.1;0.38073,MA0009.1;0.82278,MA0014.1;2.55748,MA0017.1;0.26239,MA0019.1;0.642876,MA0024.1;1.83441,MA0025.1;1.05446,MA0027.1;2.46647,MA0028.1;0.24786,MA0029.1;0.757957,MA0030.1;0.764448,MA0031.1;0.729293,MA0038.1;0.534262,MA0040.1;0.835181,MA0041.1;0.323687,MA0042.1;0.311486,MA0043.1;0.918718,MA0046.1;0.858391,MA0048.1;0.0824771,MA0050.1;0.431976,MA0051.1;0.542972,MA0052.1;0.84317,MA0055.1;1.02213,MA0056.1;0,MA0057.1;0.549903,MA0058.1;0.305206,MA0059.1;0.316585,MA0060.1;0.9744,MA0061.1;1.69511,MA0063.1;0,MA0066.1;0.523573,MA0067.1;1.16502,MA0068.1;0.266547,MA0069.1;0.843506,MA0070.1;0.833895,MA0071.1;0.431174,MA0072.1;0.825495,MA0073.1;0.00959692,MA0074.1;0.488775,MA0076.1;0.765781,MA0077.1;0.804033,MA0078.1;0.575205,MA0081.1;0.338098,MA0083.1;0.917931,MA0084.1;1.49188,MA0087.1;0.87515,MA0088.1;1.5772,MA0089.1;0,MA0090.1;0.362551,MA0091.1;0.407455,MA0092.1;0.362847,MA0093.1;0.2553,MA0095.1;0,MA0098.1;0,MA0100.1;0.477594,MA0101.1;0.867731,MA0103.1;0.272167,MA0105.1;1.73381,MA0106.1;0.582805,MA0107.1;0.73569,MA0108.2;0.665343,MA0109.1;0,MA0111.1;0.375908,MA0113.1;0.555251,MA0114.1;0.19245,MA0115.1;0.921497,MA0116.1;0.238371,MA0117.1;0.88947,MA0119.1;0.325434,MA0122.1;0.909168,MA0124.1;1.11203,MA0125.1;1.03833,MA0130.1;0,MA0131.1;0.638414,MA0132.1;0,MA0133.1;0,MA0135.1;0.954884,MA0136.1;0.508047,MA0139.1;0.441109,MA0140.1;0.477483,MA0141.1;0.29014,MA0142.1;0.714976,MA0143.1;0.571221,MA0144.1;0.195095,MA0145.1;0.77191,MA0146.1;3.91453,MA0147.1;0.205697,MA0148.1;0.410398,MA0149.1;0.330018,MA0062.2;0.738221,MA0035.2;0.482026,MA0039.2;2.37446,MA0138.2;0.630612,MA0002.2;0.877049,MA0137.2;0.287486,MA0104.2;0.157347,MA0047.2;0.533516,MA0112.2;0.771888,MA0065.2;0.44341,MA0150.1;0.380623,MA0151.1;0,MA0152.1;0.53362,MA0153.1;0.971406,MA0154.1;0.982083,MA0155.1;0.226288,MA0156.1;0.278949,MA0157.1;0.683365,MA0158.1;0,MA0159.1;0.214506,MA0160.1;0.413266,MA0161.1;0,MA0162.1;2.05851,MA0163.1;1.15194,MA0164.1;0.508398,MA0080.2;0.267388,MA0018.2;0.51781,MA0099.2;0.624421,MA0079.2;2.2128,MA0102.2;1.5442,MA0258.1;0.533988,MA0259.1;0.571417,MA0442.1;0
}}

Latest revision as of 15:51, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:59362370..59362388,-p@chr10:59362370..59362388
-
Mm9::chr16:90284627..90284638,-p4@Scaf4
Mm9::chr18:3337307..3337326,-p14@Crem
Mm9::chr19:46578166..46578186,-p@chr19:46578166..46578186
-
Mm9::chr2:3392444..3392458,+p@chr2:3392444..3392458
+
Mm9::chr3:123211506..123211533,+p@chr3:123211506..123211533
+
Mm9::chr7:29594078..29594100,-p@chr7:29594078..29594100
-
Mm9::chr7:54175363..54175399,+p@chr7:54175363..54175399
+
Mm9::chr9:121766850..121766870,+p@chr9:121766850..121766870
+


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 cell6.83e-1232
hematopoietic oligopotent progenitor cell6.83e-1232
hematopoietic stem cell6.83e-1232
angioblastic mesenchymal cell6.83e-1232
hematopoietic multipotent progenitor cell6.83e-1232
somatic stem cell1.01e-1091
multi fate stem cell1.01e-1091
somatic cell1.15e-10118
stem cell1.39e-1097
hematopoietic lineage restricted progenitor cell2.45e-1025
animal cell2.50e-09115
eukaryotic cell2.50e-09115
nucleate cell9.97e-0916
lymphoid lineage restricted progenitor cell3.36e-0812
connective tissue cell4.55e-0846
mesenchymal cell4.55e-0846
T cell1.49e-0711
pro-T cell1.49e-0711
motile cell2.13e-0754
leukocyte6.80e-0717
nongranular leukocyte6.80e-0717
lymphocyte8.85e-0713
common lymphoid progenitor8.85e-0713
mature alpha-beta T cell9.87e-079
alpha-beta T cell9.87e-079
immature T cell9.87e-079
mature T cell9.87e-079
immature alpha-beta T cell9.87e-079

Uber Anatomy
Ontology termp-valuen
connective tissue4.55e-0846


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)
MA0003.11.84202
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.12.55748
MA0017.10.26239
MA0019.10.642876
MA0024.11.83441
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.10.0824771
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.11.02213
MA0056.10
MA0057.10.549903
MA0058.10.305206
MA0059.10.316585
MA0060.10.9744
MA0061.11.69511
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.266547
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.10.00959692
MA0074.10.488775
MA0076.10.765781
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.11.5772
MA0089.10
MA0090.10.362551
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.10.867731
MA0103.10.272167
MA0105.11.73381
MA0106.10.582805
MA0107.10.73569
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.238371
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.10.441109
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.195095
MA0145.10.77191
MA0146.13.91453
MA0147.10.205697
MA0148.10.410398
MA0149.10.330018
MA0062.20.738221
MA0035.20.482026
MA0039.22.37446
MA0138.20.630612
MA0002.20.877049
MA0137.20.287486
MA0104.20.157347
MA0047.20.533516
MA0112.20.771888
MA0065.20.44341
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.982083
MA0155.10.226288
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.12.05851
MA0163.11.15194
MA0164.10.508398
MA0080.20.267388
MA0018.20.51781
MA0099.20.624421
MA0079.22.2128
MA0102.21.5442
MA0258.10.533988
MA0259.10.571417
MA0442.10
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