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MCL coexpression mm9:1967: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002193!3.26e-17!48;UBERON:0002405!3.26e-17!48;UBERON:0004119!3.87e-17!118;UBERON:0000925!3.87e-17!118;UBERON:0006595!3.87e-17!118;UBERON:0001007!1.19e-16!116;UBERON:0001555!1.19e-16!116;UBERON:0007026!1.19e-16!116;UBERON:0004921!5.60e-16!114;UBERON:0002390!6.32e-16!45;UBERON:0003061!6.32e-16!45;UBERON:0002384!1.47e-12!46;UBERON:0000490!6.80e-11!66;UBERON:0000077!1.61e-10!35;UBERON:0003929!2.41e-10!55;UBERON:0005911!6.40e-10!69;UBERON:0004177!6.46e-10!29;UBERON:0005057!6.46e-10!29;UBERON:0001041!1.19e-09!80;UBERON:0003408!6.23e-08!24;UBERON:0002370!8.12e-08!23;UBERON:0000974!8.12e-08!23;UBERON:0004807!8.12e-08!23;UBERON:0005058!8.12e-08!23;UBERON:0003351!8.12e-08!23;UBERON:0009113!8.12e-08!23;UBERON:0003295!8.12e-08!23;UBERON:0009722!8.12e-08!23;UBERON:0005562!8.12e-08!23;UBERON:0007690!8.12e-08!23;UBERON:0006562!1.27e-07!24;UBERON:0001557!1.27e-07!24;UBERON:0001042!1.27e-07!24;UBERON:0008814!1.27e-07!24;UBERON:0009145!1.27e-07!24;UBERON:0002530!1.44e-07!65;UBERON:0003081!1.66e-07!87;UBERON:0002371!6.05e-07!16
|ontology_enrichment_uberon=UBERON:0002193!3.26e-17!48;UBERON:0002405!3.26e-17!48;UBERON:0004119!3.87e-17!118;UBERON:0000925!3.87e-17!118;UBERON:0006595!3.87e-17!118;UBERON:0001007!1.19e-16!116;UBERON:0001555!1.19e-16!116;UBERON:0007026!1.19e-16!116;UBERON:0004921!5.60e-16!114;UBERON:0002390!6.32e-16!45;UBERON:0003061!6.32e-16!45;UBERON:0002384!1.47e-12!46;UBERON:0000490!6.80e-11!66;UBERON:0000077!1.61e-10!35;UBERON:0003929!2.41e-10!55;UBERON:0005911!6.40e-10!69;UBERON:0004177!6.46e-10!29;UBERON:0005057!6.46e-10!29;UBERON:0001041!1.19e-09!80;UBERON:0003408!6.23e-08!24;UBERON:0002370!8.12e-08!23;UBERON:0000974!8.12e-08!23;UBERON:0004807!8.12e-08!23;UBERON:0005058!8.12e-08!23;UBERON:0003351!8.12e-08!23;UBERON:0009113!8.12e-08!23;UBERON:0003295!8.12e-08!23;UBERON:0009722!8.12e-08!23;UBERON:0005562!8.12e-08!23;UBERON:0007690!8.12e-08!23;UBERON:0006562!1.27e-07!24;UBERON:0001557!1.27e-07!24;UBERON:0001042!1.27e-07!24;UBERON:0008814!1.27e-07!24;UBERON:0009145!1.27e-07!24;UBERON:0002530!1.44e-07!65;UBERON:0003081!1.66e-07!87;UBERON:0002371!6.05e-07!16
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.402508,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.489964,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,1.19379,0.352304,0.683591,0.570433,0.197567,0.815872,1.20979,0.620553,0.846564,1.62441,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.854272,0.503207,0.30022,0.460474,0.786577,1.94293,0.40068,0.478558,0.717547,0.185353,0.504971,0.0986756,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.882473,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,0.205546,1.32691,0.323563,0.310084,0.854076,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,0.11855,0.129654,1.4408,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,1.05366,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,1.41174,0.7614,1.51002,1.1991,0.143825,0.692434,1.02384,1.15537,1.33244,0.970073,1.97652,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.569254,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.0824127
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.402508,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.489964,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,1.19379,0.352304,0.683591,0.570433,0.197567,0.815872,1.20979,0.620553,0.846564,1.62441,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.854272,0.503207,0.30022,0.460474,0.786577,1.94293,0.40068,0.478558,0.717547,0.185353,0.504971,0.0986756,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.882473,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,0.205546,1.32691,0.323563,0.310084,0.854076,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,0.11855,0.129654,1.4408,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,1.05366,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,1.41174,0.7614,1.51002,1.1991,0.143825,0.692434,1.02384,1.15537,1.33244,0.970073,1.97652,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.569254,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.0824127
|tfbs_overrepresentation_jaspar=MA0003.1;0.0356887,MA0004.1;0.6888,MA0006.1;0.497533,MA0007.1;0.672186,MA0009.1;1.15569,MA0014.1;0.0809287,MA0017.1;0.528196,MA0019.1;0.964875,MA0024.1;1.11019,MA0025.1;1.39562,MA0027.1;2.81824,MA0028.1;0.509589,MA0029.1;1.08753,MA0030.1;2.47781,MA0031.1;1.05719,MA0038.1;0.846479,MA0040.1;1.16866,MA0041.1;0.604221,MA0042.1;0.589368,MA0043.1;1.25564,MA0046.1;1.1929,MA0048.1;0.266382,MA0050.1;4.2022,MA0051.1;3.29861,MA0052.1;1.17701,MA0055.1;0.125758,MA0056.1;0,MA0057.1;0.251896,MA0058.1;0.581673,MA0059.1;0.59559,MA0060.1;1.04037,MA0061.1;1.95592,MA0063.1;0,MA0066.1;0.834648,MA0067.1;1.50873,MA0068.1;0.256913,MA0069.1;1.17737,MA0070.1;1.16732,MA0071.1;0.73062,MA0072.1;2.6078,MA0073.1;0.0140887,MA0074.1;0.795862,MA0076.1;0.550092,MA0077.1;1.13603,MA0078.1;0.891476,MA0081.1;0.621611,MA0083.1;1.25482,MA0084.1;1.84013,MA0087.1;1.21037,MA0088.1;0.201215,MA0089.1;0,MA0090.1;0.650768,MA0091.1;0.703314,MA0092.1;0.651119,MA0093.1;0.519148,MA0095.1;0,MA0098.1;0,MA0100.1;0.783305,MA0101.1;1.47308,MA0103.1;0.540576,MA0105.1;0.313353,MA0106.1;0.899777,MA0107.1;1.3208,MA0108.2;0.989014,MA0109.1;0,MA0111.1;0.666525,MA0113.1;0.869608,MA0114.1;0.43587,MA0115.1;1.25852,MA0116.1;0.497293,MA0117.1;1.22527,MA0119.1;0.606338,MA0122.1;1.24573,MA0124.1;1.45461,MA0125.1;1.37907,MA0130.1;0,MA0131.1;0.960068,MA0132.1;0,MA0133.1;0,MA0135.1;1.29308,MA0136.1;0.817395,MA0139.1;0.365453,MA0140.1;0.78318,MA0141.1;0.563066,MA0142.1;1.04199,MA0143.1;0.887119,MA0144.1;3.96725,MA0145.1;0.21199,MA0146.1;0.0944145,MA0147.1;0.453952,MA0148.1;0.706718,MA0149.1;0.611881,MA0062.2;0.319836,MA0035.2;0.788288,MA0039.2;0.0220513,MA0138.2;0.951653,MA0002.2;0.368961,MA0137.2;1.37638,MA0104.2;0.386166,MA0047.2;0.845655,MA0112.2;0.608441,MA0065.2;0.212467,MA0150.1;1.61189,MA0151.1;0,MA0152.1;0.84577,MA0153.1;1.31015,MA0154.1;0.263609,MA0155.1;0.230016,MA0156.1;0.549102,MA0157.1;1.0083,MA0158.1;0,MA0159.1;0.465802,MA0160.1;0.71003,MA0161.1;0,MA0162.1;0.10667,MA0163.1;0.0996272,MA0164.1;0.817786,MA0080.2;0.534538,MA0018.2;0.828253,MA0099.2;0.944966,MA0079.2;0.000201415,MA0102.2;1.8929,MA0258.1;1.07695,MA0259.1;0.441366,MA0442.1;0
}}
}}

Revision as of 14:08, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:48900524..48900554,+p1@Ifi47
p1@Olfr56
Mm9::chr11:48900563..48900574,+p2@Ifi47
Mm9::chr17:36179901..36179929,+p1@Gm6034
Mm9::chr9:108957616..108957628,+p6@Shisa5


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>

Uber Anatomy
Ontology termp-valuen
hemolymphoid system3.26e-1748
immune system3.26e-1748
endoderm-derived structure3.87e-17118
endoderm3.87e-17118
presumptive endoderm3.87e-17118
digestive system1.19e-16116
digestive tract1.19e-16116
primitive gut1.19e-16116
subdivision of digestive tract5.60e-16114
hematopoietic system6.32e-1645
blood island6.32e-1645
connective tissue1.47e-1246
unilaminar epithelium6.80e-1166
mixed endoderm/mesoderm-derived structure1.61e-1035
gut epithelium2.41e-1055
endo-epithelium6.40e-1069
hemopoietic organ6.46e-1029
immune organ6.46e-1029
foregut1.19e-0980
gland of gut6.23e-0824
thymus8.12e-0823
neck8.12e-0823
respiratory system epithelium8.12e-0823
hemolymphoid system gland8.12e-0823
pharyngeal epithelium8.12e-0823
thymic region8.12e-0823
pharyngeal gland8.12e-0823
entire pharyngeal arch endoderm8.12e-0823
thymus primordium8.12e-0823
early pharyngeal endoderm8.12e-0823
pharynx1.27e-0724
upper respiratory tract1.27e-0724
chordate pharynx1.27e-0724
pharyngeal arch system1.27e-0724
pharyngeal region of foregut1.27e-0724
gland1.44e-0765
lateral plate mesoderm1.66e-0787
bone marrow6.05e-0716


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)
MA0003.10.0356887
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.0809287
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.12.47781
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.14.2022
MA0051.13.29861
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.11.04037
MA0061.11.95592
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.12.6078
MA0073.10.0140887
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.201215
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.11.47308
MA0103.10.540576
MA0105.10.313353
MA0106.10.899777
MA0107.11.3208
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.365453
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.13.96725
MA0145.10.21199
MA0146.10.0944145
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.0220513
MA0138.20.951653
MA0002.20.368961
MA0137.21.37638
MA0104.20.386166
MA0047.20.845655
MA0112.20.608441
MA0065.20.212467
MA0150.11.61189
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.10667
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.000201415
MA0102.21.8929
MA0258.11.07695
MA0259.10.441366
MA0442.10
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