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MCL coexpression mm9:1550: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0005721;centric heterochromatin;0.039430444098906;22778!GO:0001784;phosphotyrosine binding;0.039430444098906;15170!GO:0045309;protein phosphorylated amino acid binding;0.039430444098906;15170!GO:0004727;prenylated protein tyrosine phosphatase activity;0.039430444098906;15170!GO:0051219;phosphoprotein binding;0.0492691518435618;15170!GO:0016363;nuclear matrix;0.0492691518435618;226747!}}
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heterochromatin;0.039430444098906;22778!GO:0001784;phosphotyrosine binding;0.039430444098906;15170!GO:0045309;protein phosphorylated amino acid binding;0.039430444098906;15170!GO:0004727;prenylated protein tyrosine phosphatase activity;0.039430444098906;15170!GO:0051219;phosphoprotein binding;0.0492691518435618;15170!GO:0016363;nuclear matrix;0.0492691518435618;226747!|ontology_enrichment_celltype=CL:0000988!1.66e-10!32;CL:0002032!1.66e-10!32;CL:0000037!1.66e-10!32;CL:0000566!1.66e-10!32;CL:0000837!1.66e-10!32;CL:0002031!1.92e-09!25;CL:0000838!1.98e-08!12;CL:0000542!6.06e-08!13;CL:0000051!6.06e-08!13;CL:0000084!8.02e-08!11;CL:0000827!8.02e-08!11;CL:0002242!2.70e-07!16;CL:0000791!4.28e-07!9;CL:0000789!4.28e-07!9;CL:0002420!4.28e-07!9;CL:0002419!4.28e-07!9;CL:0000790!4.28e-07!9|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0002193!8.51e-15!48;UBERON:0002405!8.51e-15!48;UBERON:0002390!1.83e-13!45;UBERON:0003061!1.83e-13!45;UBERON:0004177!6.83e-12!29;UBERON:0005057!6.83e-12!29;UBERON:0000077!4.00e-10!35;UBERON:0002370!5.49e-09!23;UBERON:0000974!5.49e-09!23;UBERON:0004807!5.49e-09!23;UBERON:0005058!5.49e-09!23;UBERON:0003351!5.49e-09!23;UBERON:0009113!5.49e-09!23;UBERON:0003295!5.49e-09!23;UBERON:0009722!5.49e-09!23;UBERON:0005562!5.49e-09!23;UBERON:0007690!5.49e-09!23;UBERON:0006562!1.02e-08!24;UBERON:0001557!1.02e-08!24;UBERON:0001042!1.02e-08!24;UBERON:0008814!1.02e-08!24;UBERON:0009145!1.02e-08!24;UBERON:0003408!3.57e-08!24;UBERON:0000065!1.07e-07!41;UBERON:0007811!3.14e-07!36;UBERON:0001004!3.42e-07!42;UBERON:0001041!4.83e-07!80;UBERON:0001048!4.91e-07!134;UBERON:0003081!7.52e-07!87;UBERON:0000926!8.68e-07!120;UBERON:0004120!8.68e-07!120;UBERON:0006603!8.68e-07!120|tfbs_overrepresentation_for_novel_motifs=0.557864,0.612204,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.310789,0.746305,0.668936,0.702872,0.812978,0.728641,1.0876,0,0.930881,0.397593,0.283802,0.545768,1.22707,0.44579,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.704734,0.425309,0.454919,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.227872,0.591277,0.847828,0.658142,0.115788,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.731291,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,1.26875,0.30684,0.152094,1.23259,0.714607,0.686172,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,1.99513,1.03552,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.806207,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.673306,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,0.566955,1.53084,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.651755,1.33841,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,2.71086|tfbs_overrepresentation_jaspar=MA0003.1;2.26461,MA0004.1;1.46913,MA0006.1;0.419915,MA0007.1;1.43525,MA0009.1;1.06266,MA0014.1;0.418772,MA0017.1;1.14026,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;0.43138,MA0029.1;0.995171,MA0030.1;1.00195,MA0031.1;0.965177,MA0038.1;0.757669,MA0040.1;1.07552,MA0041.1;0.522007,MA0042.1;0.507715,MA0043.1;1.1618,MA0046.1;1.09955,MA0048.1;0.205696,MA0050.1;0.645342,MA0051.1;0.767098,MA0052.1;1.08379,MA0055.1;1.01283,MA0056.1;0,MA0057.1;0.562607,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.330907,MA0061.1;0.364227,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;0.197245,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;1.06547,MA0073.1;0.103695,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;0.53877,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;1.42769,MA0089.1;0,MA0090.1;0.566938,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;1.12162,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;0.460936,MA0105.1;1.28296,MA0106.1;0.809991,MA0107.1;0.454197,MA0108.2;0.897859,MA0109.1;0,MA0111.1;0.582193,MA0113.1;0.780358,MA0114.1;0.949408,MA0115.1;1.16466,MA0116.1;1.07655,MA0117.1;1.13165,MA0119.1;0.524046,MA0122.1;1.15196,MA0124.1;1.35963,MA0125.1;1.28445,MA0130.1;0,MA0131.1;0.869325,MA0132.1;0,MA0133.1;0,MA0135.1;1.19898,MA0136.1;0.729175,MA0139.1;1.45902,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;0.365053,MA0145.1;0.476962,MA0146.1;0.822925,MA0147.1;1.75115,MA0148.1;0.621195,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.489701,MA0138.2;0.861035,MA0002.2;0.299191,MA0137.2;0.479301,MA0104.2;1.52809,MA0047.2;0.75686,MA0112.2;0.927461,MA0065.2;0.929207,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;1.11105,MA0155.1;0.173445,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;0.389847,MA0160.1;0.624415,MA0161.1;0,MA0162.1;0.526186,MA0163.1;0.497328,MA0164.1;0.729558,MA0080.2;0.455167,MA0018.2;0.739807,MA0099.2;0.854449,MA0079.2;0.207721,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.960816,MA0442.1;0}}

Latest revision as of 17:07, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:11585678..11585745,+p5@Ikzf1
Mm9::chr11:69392869..69392900,-p4@Wrap53
Mm9::chr19:7568735..7568754,+p3@Atl3
Mm9::chr1:181733959..181733977,-p4@Ahctf1
Mm9::chr6:124683194..124683205,-p5@Ptpn6


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:0005721centric heterochromatin0.039430444098906
GO:0001784phosphotyrosine binding0.039430444098906
GO:0045309protein phosphorylated amino acid binding0.039430444098906
GO:0004727prenylated protein tyrosine phosphatase activity0.039430444098906
GO:0051219phosphoprotein binding0.0492691518435618
GO:0016363nuclear matrix0.0492691518435618



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 system8.51e-1548
immune system8.51e-1548
hematopoietic system1.83e-1345
blood island1.83e-1345
hemopoietic organ6.83e-1229
immune organ6.83e-1229
mixed endoderm/mesoderm-derived structure4.00e-1035
thymus5.49e-0923
neck5.49e-0923
respiratory system epithelium5.49e-0923
hemolymphoid system gland5.49e-0923
pharyngeal epithelium5.49e-0923
thymic region5.49e-0923
pharyngeal gland5.49e-0923
entire pharyngeal arch endoderm5.49e-0923
thymus primordium5.49e-0923
early pharyngeal endoderm5.49e-0923
pharynx1.02e-0824
upper respiratory tract1.02e-0824
chordate pharynx1.02e-0824
pharyngeal arch system1.02e-0824
pharyngeal region of foregut1.02e-0824
gland of gut3.57e-0824
respiratory tract1.07e-0741
craniocervical region3.14e-0736
respiratory system3.42e-0742
foregut4.83e-0780
primordium4.91e-07134
lateral plate mesoderm7.52e-0787
mesoderm8.68e-07120
mesoderm-derived structure8.68e-07120
presumptive mesoderm8.68e-07120


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)
MA0003.12.26461
MA0004.11.46913
MA0006.10.419915
MA0007.11.43525
MA0009.11.06266
MA0014.10.418772
MA0017.11.14026
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
MA0055.11.01283
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
MA0073.10.103695
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.11.42769
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.11.12162
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.11.28296
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.949408
MA0115.11.16466
MA0116.11.07655
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
MA0139.11.45902
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.476962
MA0146.10.822925
MA0147.11.75115
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.489701
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.21.52809
MA0047.20.75686
MA0112.20.927461
MA0065.20.929207
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.11.11105
MA0155.10.173445
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.526186
MA0163.10.497328
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.20.207721
MA0102.21.79669
MA0258.10.346619
MA0259.10.960816
MA0442.10
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