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MCL coexpression mm9:495: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003126!4.24e-09!3;UBERON:0001005!4.24e-09!3;UBERON:0007196!4.24e-09!3;UBERON:0001558!4.24e-09!3;UBERON:0000474!4.66e-07!9
|tfbs_overrepresentation_for_novel_motifs=0.206403,1.11939,0.548514,0.238864,0.356286,0.250289,0.324772,0.800034,0.223561,0.0916344,1.43088,0.84479,0.0577792,0.335151,0.769215,0,0.505674,0.699505,0.1896,0.409021,0.483972,0.138504,0.334384,1.18122,0.561942,0.35869,0.709203,0.736859,0.139679,0.125189,0.710801,0.598971,0.339783,0.634402,0.770595,0.220414,0.0985485,0.311629,1.01847,0.0703677,0.107883,0.259911,0.679042,0.774932,0.0283033,0.230148,0.433813,0.766153,0.356013,0.436869,0.48979,0.381972,0.521833,0.732469,0.749094,0.341233,0.885657,0.303999,0.674421,0.339495,0.580338,0.390204,0.516848,0.479581,0.350748,0.516415,0.880067,1.22155,0.576002,1.07689,0.515225,0.218482,0.0555827,0.781142,0.362477,0.606791,0.352807,0.423705,0.564426,0.951512,0.479273,0.521544,0.388944,1.18289,0.671442,1.02288,0.016756,0.297913,1.11664,1.38183,0.947651,0.676142,0.610915,0.365956,0.0836626,0.93084,0.790304,0.613539,0.43404,0.101478,0.0985954,0.59871,0.715894,0.490329,0.489372,0.259558,0.543989,1.38865,0.499786,0.161774,0.201092,0.717588,0.164285,0.292444,0.954503,0.106786,0.694694,0.241826,0.506861,0.31898,0.786314,0.46068,1.68726,0.422901,1.00724,0.567849,0.331666,0.60459,0.8786,0.747079,0.699779,0.233152,0.850049,0.352905,0.975524,0.732471,1.7962,0.261043,0.927716,1.74768,1.35029,0.884624,0.969317,0.608735,0.483498,0.260275,0.436593,1.7082,0.214583,0.359158,0.128142,0.00817433,0.733963,0.077277,0.352111,0.81211,0.382849,0.803531,0.590764,0.212571,0.93695,0.670634,0.568261,0.199399,0.480505,0.914274,0.0978842,0.313326,0.104898
|tfbs_overrepresentation_jaspar=MA0003.1;0.0773439,MA0004.1;0.239244,MA0006.1;0.37642,MA0007.1;1.20517,MA0009.1;0.623671,MA0014.1;0.0171266,MA0017.1;0.135289,MA0019.1;0.456268,MA0024.1;0.582844,MA0025.1;1.97072,MA0027.1;2.24512,MA0028.1;0.12472,MA0029.1;0.562703,MA0030.1;0.568779,MA0031.1;0.535959,MA0038.1;0.358622,MA0040.1;0.635404,MA0041.1;2.3099,MA0042.1;0.98784,MA0043.1;0.71494,MA0046.1;0.657417,MA0048.1;0.102771,MA0050.1;1.36492,MA0051.1;0.366328,MA0052.1;0.642973,MA0055.1;0.119754,MA0056.1;0,MA0057.1;0.0204801,MA0058.1;0.167504,MA0059.1;0.522737,MA0060.1;0.071412,MA0061.1;1.52996,MA0063.1;0,MA0066.1;0.349199,MA0067.1;0.953264,MA0068.1;1.06404,MA0069.1;1.55187,MA0070.1;0.634186,MA0071.1;0.269487,MA0072.1;0.626238,MA0073.1;0.00523458,MA0074.1;0.318792,MA0076.1;0.148159,MA0077.1;0.605975,MA0078.1;0.395048,MA0081.1;0.56362,MA0083.1;0.714187,MA0084.1;1.27474,MA0087.1;0.673355,MA0088.1;0.0106511,MA0089.1;0,MA0090.1;0.610307,MA0091.1;0.24961,MA0092.1;0.610874,MA0093.1;0.130107,MA0095.1;0,MA0098.1;0,MA0100.1;0.309116,MA0101.1;1.03005,MA0103.1;0.439015,MA0105.1;0.96551,MA0106.1;1.03774,MA0107.1;0.428571,MA0108.2;3.08701,MA0109.1;0,MA0111.1;0.223614,MA0113.1;0.377232,MA0114.1;0.291992,MA0115.1;0.717599,MA0116.1;0.37608,MA0117.1;0.686999,MA0119.1;0.183219,MA0122.1;0.705806,MA0124.1;0.901619,MA0125.1;0.830088,MA0130.1;0,MA0131.1;0.452196,MA0132.1;0,MA0133.1;0,MA0135.1;0.749615,MA0136.1;0.335579,MA0139.1;0.20466,MA0140.1;0.30902,MA0141.1;0.472769,MA0142.1;1.29772,MA0143.1;1.01504,MA0144.1;0.617592,MA0145.1;0.541572,MA0146.1;0.0253534,MA0147.1;1.60088,MA0148.1;1.29776,MA0149.1;0.18682,MA0062.2;0.0394542,MA0035.2;0.312946,MA0039.2;0.0587522,MA0138.2;1.13157,MA0002.2;1.69625,MA0137.2;0.153989,MA0104.2;0.85335,MA0047.2;0.357963,MA0112.2;0.54155,MA0065.2;1.15433,MA0150.1;0.644946,MA0151.1;0,MA0152.1;0.358055,MA0153.1;0.765498,MA0154.1;0.10034,MA0155.1;0.189024,MA0156.1;0.45173,MA0157.1;0.493416,MA0158.1;0,MA0159.1;0.679844,MA0160.1;0.254455,MA0161.1;0,MA0162.1;0.458181,MA0163.1;0.00798568,MA0164.1;0.335886,MA0080.2;0.13897,MA0018.2;0.344133,MA0099.2;1.1194,MA0079.2;0.000153054,MA0102.2;1.32652,MA0258.1;0.967298,MA0259.1;0.0890842,MA0442.1;0
}}

Latest revision as of 15:24, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:80660031..80660039,+p@chr12:80660031..80660039
+
Mm9::chr15:99421081..99421098,+p3@Aqp5
Mm9::chr19:30020231..30020242,+p3@Il33
Mm9::chr19:30020272..30020289,+p2@Il33
Mm9::chr19:47928736..47928764,+p@chr19:47928736..47928764
+
Mm9::chr19:47929400..47929411,-p@chr19:47929400..47929411
-
Mm9::chr19:47929512..47929537,+p1@Gsto1
Mm9::chr19:47929697..47929715,+p@chr19:47929697..47929715
+
Mm9::chr19:47932524..47932554,-p@chr19:47932524..47932554
-
Mm9::chr1:175912973..175912979,-p1@Ifi202b
p1@LOC100044068
Mm9::chr2:122131407..122131416,-p3@Duoxa1
Mm9::chr2:122131442..122131451,-p2@Duoxa1
Mm9::chr5:91215126..91215131,+p1@Cxcl3
Mm9::chr5:92416497..92416505,+p1@Gm1045
Mm9::chr7:30980582..30980588,-p16@Capns1


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

GO IDGO nameFDR corrected p-value
GO:0009925basal plasma membrane0.0295973810546464
GO:0045178basal part of cell0.0295973810546464
GO:0015250water channel activity0.0295973810546464
GO:0005372water transporter activity0.0295973810546464
GO:0006833water transport0.0295973810546464
GO:0042044fluid transport0.0295973810546464
GO:0004198calcium-dependent cysteine-type endopeptidase activity0.0322774391382923
GO:0005902microvillus0.0342835065633932
GO:0004364glutathione transferase activity0.0412027383397895



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>

Uber Anatomy
Ontology termp-valuen
trachea4.24e-093
respiratory airway4.24e-093
tracheobronchial tree4.24e-093
lower respiratory tract4.24e-093
female reproductive system4.66e-079


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)
MA0003.10.0773439
MA0004.10.239244
MA0006.10.37642
MA0007.11.20517
MA0009.10.623671
MA0014.10.0171266
MA0017.10.135289
MA0019.10.456268
MA0024.10.582844
MA0025.11.97072
MA0027.12.24512
MA0028.10.12472
MA0029.10.562703
MA0030.10.568779
MA0031.10.535959
MA0038.10.358622
MA0040.10.635404
MA0041.12.3099
MA0042.10.98784
MA0043.10.71494
MA0046.10.657417
MA0048.10.102771
MA0050.11.36492
MA0051.10.366328
MA0052.10.642973
MA0055.10.119754
MA0056.10
MA0057.10.0204801
MA0058.10.167504
MA0059.10.522737
MA0060.10.071412
MA0061.11.52996
MA0063.10
MA0066.10.349199
MA0067.10.953264
MA0068.11.06404
MA0069.11.55187
MA0070.10.634186
MA0071.10.269487
MA0072.10.626238
MA0073.10.00523458
MA0074.10.318792
MA0076.10.148159
MA0077.10.605975
MA0078.10.395048
MA0081.10.56362
MA0083.10.714187
MA0084.11.27474
MA0087.10.673355
MA0088.10.0106511
MA0089.10
MA0090.10.610307
MA0091.10.24961
MA0092.10.610874
MA0093.10.130107
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.11.03005
MA0103.10.439015
MA0105.10.96551
MA0106.11.03774
MA0107.10.428571
MA0108.23.08701
MA0109.10
MA0111.10.223614
MA0113.10.377232
MA0114.10.291992
MA0115.10.717599
MA0116.10.37608
MA0117.10.686999
MA0119.10.183219
MA0122.10.705806
MA0124.10.901619
MA0125.10.830088
MA0130.10
MA0131.10.452196
MA0132.10
MA0133.10
MA0135.10.749615
MA0136.10.335579
MA0139.10.20466
MA0140.10.30902
MA0141.10.472769
MA0142.11.29772
MA0143.11.01504
MA0144.10.617592
MA0145.10.541572
MA0146.10.0253534
MA0147.11.60088
MA0148.11.29776
MA0149.10.18682
MA0062.20.0394542
MA0035.20.312946
MA0039.20.0587522
MA0138.21.13157
MA0002.21.69625
MA0137.20.153989
MA0104.20.85335
MA0047.20.357963
MA0112.20.54155
MA0065.21.15433
MA0150.10.644946
MA0151.10
MA0152.10.358055
MA0153.10.765498
MA0154.10.10034
MA0155.10.189024
MA0156.10.45173
MA0157.10.493416
MA0158.10
MA0159.10.679844
MA0160.10.254455
MA0161.10
MA0162.10.458181
MA0163.10.00798568
MA0164.10.335886
MA0080.20.13897
MA0018.20.344133
MA0099.21.1194
MA0079.20.000153054
MA0102.21.32652
MA0258.10.967298
MA0259.10.0890842
MA0442.10
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