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MCL coexpression mm9:302: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004177!3.38e-25!29;UBERON:0005057!3.38e-25!29;UBERON:0002193!3.13e-22!48;UBERON:0002405!3.13e-22!48;UBERON:0001004!3.43e-22!42;UBERON:0003408!2.24e-21!24;UBERON:0000065!3.91e-21!41;UBERON:0000077!4.39e-21!35;UBERON:0002390!5.77e-21!45;UBERON:0003061!5.77e-21!45;UBERON:0002370!2.94e-20!23;UBERON:0000974!2.94e-20!23;UBERON:0004807!2.94e-20!23;UBERON:0005058!2.94e-20!23;UBERON:0003351!2.94e-20!23;UBERON:0009113!2.94e-20!23;UBERON:0003295!2.94e-20!23;UBERON:0009722!2.94e-20!23;UBERON:0005562!2.94e-20!23;UBERON:0007690!2.94e-20!23;UBERON:0006562!3.85e-19!24;UBERON:0001557!3.85e-19!24;UBERON:0001042!3.85e-19!24;UBERON:0008814!3.85e-19!24;UBERON:0009145!3.85e-19!24;UBERON:0001041!2.65e-17!80;UBERON:0000072!2.70e-16!27;UBERON:0005911!6.82e-14!69;UBERON:0003081!1.28e-13!87;UBERON:0001007!1.67e-12!116;UBERON:0001555!1.67e-12!116;UBERON:0007026!1.67e-12!116;UBERON:0000063!2.15e-12!35;UBERON:0004921!3.46e-12!114;UBERON:0004119!4.49e-12!118;UBERON:0000925!4.49e-12!118;UBERON:0006595!4.49e-12!118;UBERON:0007811!5.06e-12!36;UBERON:0001048!1.48e-11!134;UBERON:0000475!2.54e-10!150;UBERON:0000926!6.13e-10!120;UBERON:0004120!6.13e-10!120;UBERON:0006603!6.13e-10!120;UBERON:0002368!3.03e-09!60;UBERON:0003929!3.93e-09!55;UBERON:0000153!4.71e-09!43;UBERON:0002530!7.57e-09!65;UBERON:0000949!3.46e-07!72
|ontology_enrichment_uberon=UBERON:0004177!3.38e-25!29;UBERON:0005057!3.38e-25!29;UBERON:0002193!3.13e-22!48;UBERON:0002405!3.13e-22!48;UBERON:0001004!3.43e-22!42;UBERON:0003408!2.24e-21!24;UBERON:0000065!3.91e-21!41;UBERON:0000077!4.39e-21!35;UBERON:0002390!5.77e-21!45;UBERON:0003061!5.77e-21!45;UBERON:0002370!2.94e-20!23;UBERON:0000974!2.94e-20!23;UBERON:0004807!2.94e-20!23;UBERON:0005058!2.94e-20!23;UBERON:0003351!2.94e-20!23;UBERON:0009113!2.94e-20!23;UBERON:0003295!2.94e-20!23;UBERON:0009722!2.94e-20!23;UBERON:0005562!2.94e-20!23;UBERON:0007690!2.94e-20!23;UBERON:0006562!3.85e-19!24;UBERON:0001557!3.85e-19!24;UBERON:0001042!3.85e-19!24;UBERON:0008814!3.85e-19!24;UBERON:0009145!3.85e-19!24;UBERON:0001041!2.65e-17!80;UBERON:0000072!2.70e-16!27;UBERON:0005911!6.82e-14!69;UBERON:0003081!1.28e-13!87;UBERON:0001007!1.67e-12!116;UBERON:0001555!1.67e-12!116;UBERON:0007026!1.67e-12!116;UBERON:0000063!2.15e-12!35;UBERON:0004921!3.46e-12!114;UBERON:0004119!4.49e-12!118;UBERON:0000925!4.49e-12!118;UBERON:0006595!4.49e-12!118;UBERON:0007811!5.06e-12!36;UBERON:0001048!1.48e-11!134;UBERON:0000475!2.54e-10!150;UBERON:0000926!6.13e-10!120;UBERON:0004120!6.13e-10!120;UBERON:0006603!6.13e-10!120;UBERON:0002368!3.03e-09!60;UBERON:0003929!3.93e-09!55;UBERON:0000153!4.71e-09!43;UBERON:0002530!7.57e-09!65;UBERON:0000949!3.46e-07!72
|tfbs_overrepresentation_for_novel_motifs=0.282271,0.0214946,0.0710623,1.14344,0.297691,0.359101,0.164473,0.750856,0.525465,0.0209399,0.137777,0.475202,0.491749,0.172248,0.329595,0,0.309751,0.0283565,0.251913,0.172223,0.450817,0.431095,0.17167,0.542617,0.258457,0.19018,0.0385844,0.122938,0.0447558,0.274542,0.368848,0.390688,0.278799,0.0294846,0.330538,0.235787,0.0253476,0.469672,0.698183,0.0144468,0.0294192,0.117985,0.375064,0.143335,0.00780207,0.0980588,0.249844,0.131897,0.578344,0.393054,0.296304,0.208297,0.135351,0.511069,0.526356,0.176842,0.411591,0.149174,0.21374,0.175527,0.37428,0.214788,0.339634,0.287721,0.541628,0.318903,0.648538,0.976882,0.370478,0.836509,0.063053,0.148896,0.0487647,0.555978,0.00566569,0.00465613,0.191853,0.241622,0.360359,0.209736,0.0113722,0.32329,0.612722,0.27149,0.455476,0.00158494,32.3536,0.0205384,0.253413,1.13385,0.712592,0.459726,0.401262,0.564989,0.0861131,0.369361,0.738755,0.403591,0.25003,0.0468111,0.787076,0.390457,0.495886,0.29676,0.295953,0.117743,0.342607,0.807706,0.0594702,0.0565866,0.575452,0.497436,0.0579851,0.140823,0.719117,0.11984,0.000806022,0.344114,0.31076,0.479176,1.37852,0.747996,0.19139,0.240971,0.769516,0.363346,0.169628,0.395657,0.647155,0.0330911,0.481183,0.674052,0.620289,0.185736,0.739171,5.4913,0.0869147,0.378248,0.693638,1.49553,1.10287,0.652839,0.578595,0.399329,0.291009,0.118235,0.702352,1.45635,0.0880519,0.0310331,0.0213707,0.000334972,0.512441,0.0772177,0.544151,0.584782,0.601328,7.27128,33.4537,0.0867803,0.702412,0.454746,0.363706,0.270234,0.288496,0.532418,0.106601,0.155999,0.00111986
|tfbs_overrepresentation_for_novel_motifs=0.282271,0.0214946,0.0710623,1.14344,0.297691,0.359101,0.164473,0.750856,0.525465,0.0209399,0.137777,0.475202,0.491749,0.172248,0.329595,0,0.309751,0.0283565,0.251913,0.172223,0.450817,0.431095,0.17167,0.542617,0.258457,0.19018,0.0385844,0.122938,0.0447558,0.274542,0.368848,0.390688,0.278799,0.0294846,0.330538,0.235787,0.0253476,0.469672,0.698183,0.0144468,0.0294192,0.117985,0.375064,0.143335,0.00780207,0.0980588,0.249844,0.131897,0.578344,0.393054,0.296304,0.208297,0.135351,0.511069,0.526356,0.176842,0.411591,0.149174,0.21374,0.175527,0.37428,0.214788,0.339634,0.287721,0.541628,0.318903,0.648538,0.976882,0.370478,0.836509,0.063053,0.148896,0.0487647,0.555978,0.00566569,0.00465613,0.191853,0.241622,0.360359,0.209736,0.0113722,0.32329,0.612722,0.27149,0.455476,0.00158494,32.3536,0.0205384,0.253413,1.13385,0.712592,0.459726,0.401262,0.564989,0.0861131,0.369361,0.738755,0.403591,0.25003,0.0468111,0.787076,0.390457,0.495886,0.29676,0.295953,0.117743,0.342607,0.807706,0.0594702,0.0565866,0.575452,0.497436,0.0579851,0.140823,0.719117,0.11984,0.000806022,0.344114,0.31076,0.479176,1.37852,0.747996,0.19139,0.240971,0.769516,0.363346,0.169628,0.395657,0.647155,0.0330911,0.481183,0.674052,0.620289,0.185736,0.739171,5.4913,0.0869147,0.378248,0.693638,1.49553,1.10287,0.652839,0.578595,0.399329,0.291009,0.118235,0.702352,1.45635,0.0880519,0.0310331,0.0213707,0.000334972,0.512441,0.0772177,0.544151,0.584782,0.601328,7.27128,33.4537,0.0867803,0.702412,0.454746,0.363706,0.270234,0.288496,0.532418,0.106601,0.155999,0.00111986
|tfbs_overrepresentation_jaspar=MA0003.1;7.17468e-05,MA0004.1;0.339556,MA0006.1;0.137005,MA0007.1;0.0963695,MA0009.1;0.412602,MA0014.1;0.000234653,MA0017.1;0.373582,MA0019.1;0.268299,MA0024.1;0.982128,MA0025.1;1.49518,MA0027.1;1.99083,MA0028.1;0.0372733,MA0029.1;1.68237,MA0030.1;1.70085,MA0031.1;1.60099,MA0038.1;0.190128,MA0040.1;0.423075,MA0041.1;4.45883,MA0042.1;6.66176,MA0043.1;0.495015,MA0046.1;0.442826,MA0048.1;0.0143106,MA0050.1;0.12507,MA0051.1;0.196084,MA0052.1;0.429851,MA0055.1;0.0446125,MA0056.1;0,MA0057.1;0.0390242,MA0058.1;0.216391,MA0059.1;0.231081,MA0060.1;0.01481,MA0061.1;0.0919288,MA0063.1;0,MA0066.1;0.182901,MA0067.1;0.717937,MA0068.1;3.7491,MA0069.1;0.430137,MA0070.1;0.421986,MA0071.1;0.124599,MA0072.1;0.414891,MA0073.1;46.5649,MA0074.1;0.160032,MA0076.1;0.0491916,MA0077.1;0.396883,MA0078.1;0.218627,MA0081.1;0.259646,MA0083.1;0.494326,MA0084.1;1.02883,MA0087.1;1.1577,MA0088.1;0.0982787,MA0089.1;0,MA0090.1;0.611372,MA0091.1;0.724669,MA0092.1;0.29369,MA0093.1;0.357759,MA0095.1;0,MA0098.1;0,MA0100.1;0.152909,MA0101.1;0.241986,MA0103.1;0.0462215,MA0105.1;0.00488834,MA0106.1;0.224053,MA0107.1;0.168906,MA0108.2;0.285422,MA0109.1;0,MA0111.1;0.312128,MA0113.1;0.20458,MA0114.1;0.43051,MA0115.1;0.497446,MA0116.1;0.136803,MA0117.1;0.469566,MA0119.1;0.242709,MA0122.1;0.486676,MA0124.1;0.668899,MA0125.1;0.601578,MA0130.1;0,MA0131.1;0.264933,MA0132.1;0,MA0133.1;0,MA0135.1;0.526836,MA0136.1;0.17257,MA0139.1;0.00975676,MA0140.1;0.152839,MA0141.1;0.43696,MA0142.1;0.866283,MA0143.1;0.215799,MA0144.1;0.230788,MA0145.1;0.0202683,MA0146.1;8.53809e-05,MA0147.1;0.102772,MA0148.1;0.732208,MA0149.1;0.0709954,MA0062.2;0.0053726,MA0035.2;0.472078,MA0039.2;0.00403685,MA0138.2;0.259078,MA0002.2;0.139327,MA0137.2;0.430805,MA0104.2;0.0596743,MA0047.2;0.554999,MA0112.2;0.0202662,MA0065.2;0.0546357,MA0150.1;0.0963127,MA0151.1;0,MA0152.1;0.55517,MA0153.1;0.541494,MA0154.1;0.109874,MA0155.1;0.145815,MA0156.1;0.183686,MA0157.1;1.47138,MA0158.1;0,MA0159.1;0.026509,MA0160.1;0.366505,MA0161.1;0,MA0162.1;0.0520531,MA0163.1;0.0026877,MA0164.1;0.172802,MA0080.2;0.169853,MA0018.2;0.179043,MA0099.2;0.254459,MA0079.2;2.47133e-05,MA0102.2;1.07954,MA0258.1;0.0795237,MA0259.1;0.0938192,MA0442.1;0
}}
}}

Revision as of 11:31, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:34307065..34307078,-p@chr11:34307065..34307078
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Mm9::chr11:98324735..98324746,-p@chr11:98324735..98324746
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Mm9::chr11:98325090..98325112,-p@chr11:98325090..98325112
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Mm9::chr11:98325155..98325164,-p@chr11:98325155..98325164
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Mm9::chr11:98325208..98325219,-p@chr11:98325208..98325219
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Mm9::chr11:98370187..98370202,-p@chr11:98370187..98370202
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Mm9::chr11:98396986..98396990,-p@chr11:98396986..98396990
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Mm9::chr13:24606810..24606813,+p@chr13:24606810..24606813
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Mm9::chr13:24610066..24610098,+p@chr13:24610066..24610098
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Mm9::chr13:41520348..41520362,-p@chr13:41520348..41520362
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Mm9::chr13:41520412..41520465,-p@chr13:41520412..41520465
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Mm9::chr13:41520496..41520515,-p@chr13:41520496..41520515
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Mm9::chr13:41520525..41520563,-p@chr13:41520525..41520563
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Mm9::chr13:41520609..41520625,-p@chr13:41520609..41520625
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Mm9::chr17:28359158..28359163,+p@chr17:28359158..28359163
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Mm9::chr17:47675588..47675602,+p@chr17:47675588..47675602
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Mm9::chr17:47675638..47675644,+p@chr17:47675638..47675644
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Mm9::chr17:47677674..47677686,+p@chr17:47677674..47677686
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Mm9::chr19:25131653..25131662,+p@chr19:25131653..25131662
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Mm9::chr2:22660265..22660288,+p@chr2:22660265..22660288
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Mm9::chr5:141412094..141412095,-p@chr5:141412094..141412095
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Mm9::chr5:141471722..141471740,-p@chr5:141471722..141471740
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Mm9::chr5:141471781..141471795,-p@chr5:141471781..141471795
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Mm9::chr6:120415890..120415900,+p@chr6:120415890..120415900
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Mm9::chr6:120415907..120415962,+p@chr6:120415907..120415962
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Mm9::chr6:48689867..48689876,+p@chr6:48689867..48689876
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Mm9::chr7:90790764..90790768,-p@chr7:90790764..90790768
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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
hemopoietic organ3.38e-2529
immune organ3.38e-2529
hemolymphoid system3.13e-2248
immune system3.13e-2248
respiratory system3.43e-2242
gland of gut2.24e-2124
respiratory tract3.91e-2141
mixed endoderm/mesoderm-derived structure4.39e-2135
hematopoietic system5.77e-2145
blood island5.77e-2145
thymus2.94e-2023
neck2.94e-2023
respiratory system epithelium2.94e-2023
hemolymphoid system gland2.94e-2023
pharyngeal epithelium2.94e-2023
thymic region2.94e-2023
pharyngeal gland2.94e-2023
entire pharyngeal arch endoderm2.94e-2023
thymus primordium2.94e-2023
early pharyngeal endoderm2.94e-2023
pharynx3.85e-1924
upper respiratory tract3.85e-1924
chordate pharynx3.85e-1924
pharyngeal arch system3.85e-1924
pharyngeal region of foregut3.85e-1924
foregut2.65e-1780
segment of respiratory tract2.70e-1627
endo-epithelium6.82e-1469
lateral plate mesoderm1.28e-1387
digestive system1.67e-12116
digestive tract1.67e-12116
primitive gut1.67e-12116
organ segment2.15e-1235
subdivision of digestive tract3.46e-12114
endoderm-derived structure4.49e-12118
endoderm4.49e-12118
presumptive endoderm4.49e-12118
craniocervical region5.06e-1236
primordium1.48e-11134
organism subdivision2.54e-10150
mesoderm6.13e-10120
mesoderm-derived structure6.13e-10120
presumptive mesoderm6.13e-10120
endocrine gland3.03e-0960
gut epithelium3.93e-0955
anterior region of body4.71e-0943
gland7.57e-0965
endocrine system3.46e-0772


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)
MA0003.17.17468e-05
MA0004.10.339556
MA0006.10.137005
MA0007.10.0963695
MA0009.10.412602
MA0014.10.000234653
MA0017.10.373582
MA0019.10.268299
MA0024.10.982128
MA0025.11.49518
MA0027.11.99083
MA0028.10.0372733
MA0029.11.68237
MA0030.11.70085
MA0031.11.60099
MA0038.10.190128
MA0040.10.423075
MA0041.14.45883
MA0042.16.66176
MA0043.10.495015
MA0046.10.442826
MA0048.10.0143106
MA0050.10.12507
MA0051.10.196084
MA0052.10.429851
MA0055.10.0446125
MA0056.10
MA0057.10.0390242
MA0058.10.216391
MA0059.10.231081
MA0060.10.01481
MA0061.10.0919288
MA0063.10
MA0066.10.182901
MA0067.10.717937
MA0068.13.7491
MA0069.10.430137
MA0070.10.421986
MA0071.10.124599
MA0072.10.414891
MA0073.146.5649
MA0074.10.160032
MA0076.10.0491916
MA0077.10.396883
MA0078.10.218627
MA0081.10.259646
MA0083.10.494326
MA0084.11.02883
MA0087.11.1577
MA0088.10.0982787
MA0089.10
MA0090.10.611372
MA0091.10.724669
MA0092.10.29369
MA0093.10.357759
MA0095.10
MA0098.10
MA0100.10.152909
MA0101.10.241986
MA0103.10.0462215
MA0105.10.00488834
MA0106.10.224053
MA0107.10.168906
MA0108.20.285422
MA0109.10
MA0111.10.312128
MA0113.10.20458
MA0114.10.43051
MA0115.10.497446
MA0116.10.136803
MA0117.10.469566
MA0119.10.242709
MA0122.10.486676
MA0124.10.668899
MA0125.10.601578
MA0130.10
MA0131.10.264933
MA0132.10
MA0133.10
MA0135.10.526836
MA0136.10.17257
MA0139.10.00975676
MA0140.10.152839
MA0141.10.43696
MA0142.10.866283
MA0143.10.215799
MA0144.10.230788
MA0145.10.0202683
MA0146.18.53809e-05
MA0147.10.102772
MA0148.10.732208
MA0149.10.0709954
MA0062.20.0053726
MA0035.20.472078
MA0039.20.00403685
MA0138.20.259078
MA0002.20.139327
MA0137.20.430805
MA0104.20.0596743
MA0047.20.554999
MA0112.20.0202662
MA0065.20.0546357
MA0150.10.0963127
MA0151.10
MA0152.10.55517
MA0153.10.541494
MA0154.10.109874
MA0155.10.145815
MA0156.10.183686
MA0157.11.47138
MA0158.10
MA0159.10.026509
MA0160.10.366505
MA0161.10
MA0162.10.0520531
MA0163.10.0026877
MA0164.10.172802
MA0080.20.169853
MA0018.20.179043
MA0099.20.254459
MA0079.22.47133e-05
MA0102.21.07954
MA0258.10.0795237
MA0259.10.0938192
MA0442.10
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