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MCL coexpression mm9:375: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000344!3.70e-14!15;UBERON:0002384!4.50e-14!46;UBERON:0001242!1.09e-11!13;UBERON:0000060!1.09e-11!13;UBERON:0001262!1.09e-11!13;UBERON:0004786!1.09e-11!13;UBERON:0000485!6.18e-11!11;UBERON:0003350!1.17e-09!9;UBERON:0004808!1.17e-09!9;UBERON:0001277!1.17e-09!9;UBERON:0004923!3.17e-07!24
|tfbs_overrepresentation_for_novel_motifs=0.429668,0.0914394,0.388927,0.96166,0.227727,0.521151,0.240519,0.826338,0.125781,0.281172,0.208344,0.654555,0.116335,0.249744,0.249925,0,0.405853,0.474154,0.101621,0.382642,1.66052,0.0174338,1.98967,0.489432,0.127411,0.270807,0.443855,0.556066,0.289627,0.158048,0.18034,0.493846,0.214529,0.384407,0.0716204,0.0355512,0.44687,0.228897,0.046364,0.0359308,0.483482,0.183887,0.111877,0.917379,0.0465085,0.158598,0.339166,0.201138,0.0320039,0.293801,0.39102,0.291819,0.0541297,0.621761,0.63782,0.255168,0.634897,0.632526,0.216792,0.253617,0.476165,0.299289,0.323654,0.381514,0.26368,0.41591,0.765078,1.10104,0.472057,0.958179,0.360193,0.122106,0.144319,0.66884,0.0802546,0.0711042,0.0769515,0.329879,0.461106,0.339733,0.541148,0.420719,0.807577,0.497032,0.563042,0.0333195,0.0430872,0.158281,0.343187,1.25993,0.831175,0.56755,0.505205,0.235518,0.387366,0.0383905,0.274301,0.507703,0.339375,0.449276,0.779402,0.493598,0.605777,0.391523,0.390631,0.183584,0.44182,0.198293,0.106835,0.102757,0.134437,0.607409,0.34141,0.212058,0.837889,0.479203,0.121032,0.503545,0.406964,0.198077,0.673855,0.954566,0.272218,0.329142,0.889642,0.464341,0.246642,0.499188,0.763646,0.239481,0.590261,0.161127,0.735806,0.733457,0.858504,0.0168417,0.870273,1.03834,0.811653,1.62404,1.22863,0.769526,0.281588,0.50313,0.385159,0.541905,1.62232,1.58469,0.145585,0.230037,0.0608166,0.11027,0.623204,0.0405022,0.264901,0.698893,0.292614,0.266327,0.425787,0.143914,0.820693,0.562267,0.464731,0.415022,0.995075,0.259222,0.0547089,0.230394,0.000655516
|tfbs_overrepresentation_jaspar=MA0003.1;1.81796e-05,MA0004.1;0.166273,MA0006.1;0.0693118,MA0007.1;0.156418,MA0009.1;0.517357,MA0014.1;0.0102994,MA0017.1;0.0822314,MA0019.1;0.945544,MA0024.1;0.47854,MA0025.1;0.731571,MA0027.1;2.12059,MA0028.1;0.0742616,MA0029.1;0.459477,MA0030.1;0.465221,MA0031.1;0.434261,MA0038.1;0.270746,MA0040.1;1.31025,MA0041.1;0.759867,MA0042.1;0.725455,MA0043.1;1.47136,MA0046.1;0.549602,MA0048.1;0.126821,MA0050.1;0.562435,MA0051.1;0.277682,MA0052.1;0.535783,MA0055.1;0.163189,MA0056.1;0,MA0057.1;0.109748,MA0058.1;0.107291,MA0059.1;0.114315,MA0060.1;0.0366148,MA0061.1;0.403905,MA0063.1;0,MA0066.1;1.33583,MA0067.1;0.836675,MA0068.1;0.115531,MA0069.1;1.32625,MA0070.1;0.52739,MA0071.1;0.561031,MA0072.1;0.519805,MA0073.1;0.0154123,MA0074.1;0.235223,MA0076.1;0.0921124,MA0077.1;0.500504,MA0078.1;0.303693,MA0081.1;0.12798,MA0083.1;0.604132,MA0084.1;1.15371,MA0087.1;0.564877,MA0088.1;0.0185362,MA0089.1;0,MA0090.1;0.144081,MA0091.1;0.175078,MA0092.1;0.14428,MA0093.1;0.0783063,MA0095.1;0,MA0098.1;0,MA0100.1;0.643107,MA0101.1;0.380246,MA0103.1;0.295593,MA0105.1;0.370806,MA0106.1;0.309901,MA0107.1;0.286884,MA0108.2;0.378962,MA0109.1;0,MA0111.1;0.153116,MA0113.1;0.287528,MA0114.1;0.0467203,MA0115.1;0.60742,MA0116.1;0.0692153,MA0117.1;0.577975,MA0119.1;0.381144,MA0122.1;0.596061,MA0124.1;0.786128,MA0125.1;0.716372,MA0130.1;0,MA0131.1;0.937216,MA0132.1;0,MA0133.1;0,MA0135.1;0.638323,MA0136.1;0.250125,MA0139.1;0.0266907,MA0140.1;0.226598,MA0141.1;0.323987,MA0142.1;0.421761,MA0143.1;0.300449,MA0144.1;0.0479235,MA0145.1;0.00374848,MA0146.1;0.00528685,MA0147.1;0.0528647,MA0148.1;0.17717,MA0149.1;0.12279,MA0062.2;0.0776681,MA0035.2;0.230058,MA0039.2;8.97295e-05,MA0138.2;0.349554,MA0002.2;0.277315,MA0137.2;0.0966473,MA0104.2;0.0319344,MA0047.2;0.270154,MA0112.2;0.0220338,MA0065.2;0.00378142,MA0150.1;0.921891,MA0151.1;0,MA0152.1;0.270237,MA0153.1;0.653688,MA0154.1;0.0439699,MA0155.1;0.00513446,MA0156.1;0.306246,MA0157.1;0.394402,MA0158.1;0,MA0159.1;0.208462,MA0160.1;0.529811,MA0161.1;0,MA0162.1;0.00808763,MA0163.1;0.00140509,MA0164.1;0.698382,MA0080.2;0.0850381,MA0018.2;0.257759,MA0099.2;0.344363,MA0079.2;2.3794e-08,MA0102.2;1.20505,MA0258.1;0.0416225,MA0259.1;0.048545,MA0442.1;0
}}

Latest revision as of 15:11, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127398581..127398605,+p@chr10:127398581..127398605
+
Mm9::chr11:52060053..52060061,+p@chr11:52060053..52060061
+
Mm9::chr12:107697344..107697367,+p1@ENSMUST00000167139
Mm9::chr12:24588010..24588052,+p@chr12:24588010..24588052
+
Mm9::chr12:7604740..7604741,+p@chr12:7604740..7604741
+
Mm9::chr13:30823618..30823626,+p1@ENSMUST00000120583
Mm9::chr13:83826797..83826824,+p@chr13:83826797..83826824
+
Mm9::chr14:13700032..13700054,+p1@ENSMUST00000022260
Mm9::chr14:39193635..39193657,+p1@Gm3386
Mm9::chr16:42955668..42955678,+p4@BC002163
Mm9::chr17:47547456..47547498,+p@chr17:47547456..47547498
+
Mm9::chr2:25398946..25398959,+p1@ENSMUST00000121701
Mm9::chr3:18433512..18433515,+p1@ENSMUST00000069626
Mm9::chr4:129013260..129013285,+p3@Zbtb8os
Mm9::chr5:138056838..138056849,+p1@ENSMUST00000117679
Mm9::chr5:42158898..42158902,+p@chr5:42158898..42158902
+
Mm9::chr7:98120896..98120913,+p@chr7:98120896..98120913
+
Mm9::chr8:99687664..99687683,+p@chr8:99687664..99687683
+
Mm9::chrX:153452085..153452103,-p1@ENSMUST00000120749
Mm9::chrX:5561787..5561828,+p1@ENSMUST00000119984


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
somatic cell2.59e-19118
animal cell1.65e-17115
eukaryotic cell1.65e-17115
epithelial cell1.29e-1625
hematopoietic cell4.69e-1532
hematopoietic oligopotent progenitor cell4.69e-1532
hematopoietic stem cell4.69e-1532
angioblastic mesenchymal cell4.69e-1532
hematopoietic multipotent progenitor cell4.69e-1532
connective tissue cell4.50e-1446
mesenchymal cell4.50e-1446
endo-epithelial cell9.98e-1415
motile cell6.41e-1354
hematopoietic lineage restricted progenitor cell8.81e-1325
endodermal cell3.52e-1220
stem cell1.32e-1097
lymphoid lineage restricted progenitor cell1.11e-0912
intestinal epithelial cell1.17e-099
epithelial cell of alimentary canal1.17e-099
leukocyte3.53e-0917
nongranular leukocyte3.53e-0917
T cell9.75e-0911
pro-T cell9.75e-0911
mature alpha-beta T cell1.01e-089
alpha-beta T cell1.01e-089
immature T cell1.01e-089
mature T cell1.01e-089
immature alpha-beta T cell1.01e-089
lymphocyte1.04e-0813
common lymphoid progenitor1.04e-0813
columnar/cuboidal epithelial cell3.31e-087
CD4-positive, alpha-beta T cell7.05e-088
nucleate cell8.86e-0816
common myeloid progenitor9.90e-0819
somatic stem cell1.42e-0791
multi fate stem cell1.42e-0791
brush border epithelial cell1.49e-076
gut absorptive cell1.49e-076
absorptive cell1.49e-076
enterocyte1.49e-076


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)
MA0003.11.81796e-05
MA0004.10.166273
MA0006.10.0693118
MA0007.10.156418
MA0009.10.517357
MA0014.10.0102994
MA0017.10.0822314
MA0019.10.945544
MA0024.10.47854
MA0025.10.731571
MA0027.12.12059
MA0028.10.0742616
MA0029.10.459477
MA0030.10.465221
MA0031.10.434261
MA0038.10.270746
MA0040.11.31025
MA0041.10.759867
MA0042.10.725455
MA0043.11.47136
MA0046.10.549602
MA0048.10.126821
MA0050.10.562435
MA0051.10.277682
MA0052.10.535783
MA0055.10.163189
MA0056.10
MA0057.10.109748
MA0058.10.107291
MA0059.10.114315
MA0060.10.0366148
MA0061.10.403905
MA0063.10
MA0066.11.33583
MA0067.10.836675
MA0068.10.115531
MA0069.11.32625
MA0070.10.52739
MA0071.10.561031
MA0072.10.519805
MA0073.10.0154123
MA0074.10.235223
MA0076.10.0921124
MA0077.10.500504
MA0078.10.303693
MA0081.10.12798
MA0083.10.604132
MA0084.11.15371
MA0087.10.564877
MA0088.10.0185362
MA0089.10
MA0090.10.144081
MA0091.10.175078
MA0092.10.14428
MA0093.10.0783063
MA0095.10
MA0098.10
MA0100.10.643107
MA0101.10.380246
MA0103.10.295593
MA0105.10.370806
MA0106.10.309901
MA0107.10.286884
MA0108.20.378962
MA0109.10
MA0111.10.153116
MA0113.10.287528
MA0114.10.0467203
MA0115.10.60742
MA0116.10.0692153
MA0117.10.577975
MA0119.10.381144
MA0122.10.596061
MA0124.10.786128
MA0125.10.716372
MA0130.10
MA0131.10.937216
MA0132.10
MA0133.10
MA0135.10.638323
MA0136.10.250125
MA0139.10.0266907
MA0140.10.226598
MA0141.10.323987
MA0142.10.421761
MA0143.10.300449
MA0144.10.0479235
MA0145.10.00374848
MA0146.10.00528685
MA0147.10.0528647
MA0148.10.17717
MA0149.10.12279
MA0062.20.0776681
MA0035.20.230058
MA0039.28.97295e-05
MA0138.20.349554
MA0002.20.277315
MA0137.20.0966473
MA0104.20.0319344
MA0047.20.270154
MA0112.20.0220338
MA0065.20.00378142
MA0150.10.921891
MA0151.10
MA0152.10.270237
MA0153.10.653688
MA0154.10.0439699
MA0155.10.00513446
MA0156.10.306246
MA0157.10.394402
MA0158.10
MA0159.10.208462
MA0160.10.529811
MA0161.10
MA0162.10.00808763
MA0163.10.00140509
MA0164.10.698382
MA0080.20.0850381
MA0018.20.257759
MA0099.20.344363
MA0079.22.3794e-08
MA0102.21.20505
MA0258.10.0416225
MA0259.10.048545
MA0442.10
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