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MCL coexpression mm9:551: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0005418!1.04e-09!5;UBERON:0002472!1.04e-09!5;UBERON:0008784!1.04e-09!5;UBERON:0006058!1.04e-09!5;UBERON:0004709!1.04e-09!5;UBERON:0002529!1.04e-09!5;UBERON:0010538!1.04e-09!5;UBERON:0005420!1.04e-09!5;UBERON:0010758!1.04e-09!5;UBERON:0000978!1.04e-09!5;UBERON:0002103!1.04e-09!5;UBERON:0000376!1.04e-09!5;UBERON:0000154!1.04e-09!5;UBERON:0010709!1.04e-09!5;UBERON:0005730!1.04e-09!5;UBERON:0000981!1.92e-08!4;UBERON:0003608!1.92e-08!4;UBERON:0003826!1.92e-08!4;UBERON:0008202!1.92e-08!4;UBERON:0004381!1.92e-08!4;UBERON:0007273!1.92e-08!4;UBERON:0010912!1.92e-08!4;UBERON:0002513!1.92e-08!4;UBERON:0004375!1.92e-08!4;UBERON:0010740!1.92e-08!4;UBERON:0010363!1.92e-08!4;UBERON:0003860!1.92e-08!4;UBERON:0002428!1.92e-08!4;UBERON:0010742!1.92e-08!4;UBERON:0002495!1.92e-08!4;UBERON:0003464!1.92e-08!4;UBERON:0003606!1.92e-08!4;UBERON:0005893!1.92e-08!4;UBERON:0009749!1.92e-08!4;UBERON:0010712!1.92e-08!4;UBERON:0010886!1.92e-08!4;UBERON:0005254!1.92e-08!4;UBERON:0010885!1.92e-08!4;UBERON:0010881!1.92e-08!4;UBERON:0010882!1.92e-08!4;UBERON:0007844!1.92e-08!4;UBERON:0001441!1.92e-08!4;UBERON:0011249!1.92e-08!4;UBERON:0002091!1.92e-08!4;UBERON:0003285!1.92e-08!4;UBERON:0004288!1.92e-08!4;UBERON:0010129!1.92e-08!4;UBERON:0006234!1.92e-08!4;UBERON:0002106!1.14e-07!6;UBERON:0004457!1.14e-07!6;UBERON:0000042!1.14e-07!6;UBERON:0004854!1.14e-07!6;UBERON:0009034!1.14e-07!6;UBERON:0002095!1.14e-07!6;UBERON:0004782!1.14e-07!6;UBERON:0003281!1.14e-07!6;UBERON:0009664!1.14e-07!6;UBERON:0002296!1.14e-07!6;UBERON:0005602!1.14e-07!6;UBERON:0001179!1.14e-07!6;UBERON:0006293!1.14e-07!6
|ontology_enrichment_uberon=UBERON:0005418!1.04e-09!5;UBERON:0002472!1.04e-09!5;UBERON:0008784!1.04e-09!5;UBERON:0006058!1.04e-09!5;UBERON:0004709!1.04e-09!5;UBERON:0002529!1.04e-09!5;UBERON:0010538!1.04e-09!5;UBERON:0005420!1.04e-09!5;UBERON:0010758!1.04e-09!5;UBERON:0000978!1.04e-09!5;UBERON:0002103!1.04e-09!5;UBERON:0000376!1.04e-09!5;UBERON:0000154!1.04e-09!5;UBERON:0010709!1.04e-09!5;UBERON:0005730!1.04e-09!5;UBERON:0000981!1.92e-08!4;UBERON:0003608!1.92e-08!4;UBERON:0003826!1.92e-08!4;UBERON:0008202!1.92e-08!4;UBERON:0004381!1.92e-08!4;UBERON:0007273!1.92e-08!4;UBERON:0010912!1.92e-08!4;UBERON:0002513!1.92e-08!4;UBERON:0004375!1.92e-08!4;UBERON:0010740!1.92e-08!4;UBERON:0010363!1.92e-08!4;UBERON:0003860!1.92e-08!4;UBERON:0002428!1.92e-08!4;UBERON:0010742!1.92e-08!4;UBERON:0002495!1.92e-08!4;UBERON:0003464!1.92e-08!4;UBERON:0003606!1.92e-08!4;UBERON:0005893!1.92e-08!4;UBERON:0009749!1.92e-08!4;UBERON:0010712!1.92e-08!4;UBERON:0010886!1.92e-08!4;UBERON:0005254!1.92e-08!4;UBERON:0010885!1.92e-08!4;UBERON:0010881!1.92e-08!4;UBERON:0010882!1.92e-08!4;UBERON:0007844!1.92e-08!4;UBERON:0001441!1.92e-08!4;UBERON:0011249!1.92e-08!4;UBERON:0002091!1.92e-08!4;UBERON:0003285!1.92e-08!4;UBERON:0004288!1.92e-08!4;UBERON:0010129!1.92e-08!4;UBERON:0006234!1.92e-08!4;UBERON:0002106!1.14e-07!6;UBERON:0004457!1.14e-07!6;UBERON:0000042!1.14e-07!6;UBERON:0004854!1.14e-07!6;UBERON:0009034!1.14e-07!6;UBERON:0002095!1.14e-07!6;UBERON:0004782!1.14e-07!6;UBERON:0003281!1.14e-07!6;UBERON:0009664!1.14e-07!6;UBERON:0002296!1.14e-07!6;UBERON:0005602!1.14e-07!6;UBERON:0001179!1.14e-07!6;UBERON:0006293!1.14e-07!6
|tfbs_overrepresentation_for_novel_motifs=0.244604,0.0867717,0.223558,0.279403,0.848472,0.291576,0.370193,0.566731,0.283485,0.050306,0.331725,0.35958,0.0780266,0.381063,0.898708,0,0.557619,0.416118,1.3481,0.286444,0.567339,0.383765,0.38026,1.36389,0.229596,0.405649,0.0651848,0.309422,0.171781,0.0443815,0.805906,0.653099,0.412165,0.202991,0.151158,0.195932,0.125578,0.356403,0.358188,0.0929685,0.836384,0.301802,0.347242,0.463442,0.119688,0.270091,0.48361,0.322976,0.742531,0.173974,0.541299,0.429887,0.366754,0.788877,0.805733,0.387424,0.533349,0.348382,0.218496,0.385607,0.634076,0.438439,0.090369,0.5308,0.397364,0.568642,0.938213,1.28193,0.629645,1.13654,0.208654,0.0812872,0.0186364,0.838198,0.0571922,0.192403,0.202885,0.473159,0.617814,1.09058,0.279684,0.573903,0.437131,0.258127,0.72691,0.0240533,4.80674,0.385151,0.488122,1.44275,1.0064,0.731688,0.665283,1.39608,0.108477,0.321665,0.264364,0.667958,0.483845,0.329451,1.28682,0.652833,0.772062,0.541854,0.54087,0.301427,0.596902,0.319507,0.584153,0.196131,0.671624,0.773781,1.71974,0.336214,1.01331,0.41985,0.00714903,0.282562,0.558838,0.389429,0.843435,0.511336,0.407285,1.19021,1.06644,0.621313,0.984184,0.658832,0.936732,0.445937,0.755703,0.273302,0.907893,0.399614,1.03449,0.0751544,0.251471,1.4845,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,0.53483,0.302189,0.486482,1.76978,0.253405,0.433248,0.391484,0.0139939,0.790393,0.331601,0.398786,0.869538,1.10066,1.49437,1.9558,0.251242,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,0.12482,0.358185,0.085942
|tfbs_overrepresentation_for_novel_motifs=0.244604,0.0867717,0.223558,0.279403,0.848472,0.291576,0.370193,0.566731,0.283485,0.050306,0.331725,0.35958,0.0780266,0.381063,0.898708,0,0.557619,0.416118,1.3481,0.286444,0.567339,0.383765,0.38026,1.36389,0.229596,0.405649,0.0651848,0.309422,0.171781,0.0443815,0.805906,0.653099,0.412165,0.202991,0.151158,0.195932,0.125578,0.356403,0.358188,0.0929685,0.836384,0.301802,0.347242,0.463442,0.119688,0.270091,0.48361,0.322976,0.742531,0.173974,0.541299,0.429887,0.366754,0.788877,0.805733,0.387424,0.533349,0.348382,0.218496,0.385607,0.634076,0.438439,0.090369,0.5308,0.397364,0.568642,0.938213,1.28193,0.629645,1.13654,0.208654,0.0812872,0.0186364,0.838198,0.0571922,0.192403,0.202885,0.473159,0.617814,1.09058,0.279684,0.573903,0.437131,0.258127,0.72691,0.0240533,4.80674,0.385151,0.488122,1.44275,1.0064,0.731688,0.665283,1.39608,0.108477,0.321665,0.264364,0.667958,0.483845,0.329451,1.28682,0.652833,0.772062,0.541854,0.54087,0.301427,0.596902,0.319507,0.584153,0.196131,0.671624,0.773781,1.71974,0.336214,1.01331,0.41985,0.00714903,0.282562,0.558838,0.389429,0.843435,0.511336,0.407285,1.19021,1.06644,0.621313,0.984184,0.658832,0.936732,0.445937,0.755703,0.273302,0.907893,0.399614,1.03449,0.0751544,0.251471,1.4845,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,0.53483,0.302189,0.486482,1.76978,0.253405,0.433248,0.391484,0.0139939,0.790393,0.331601,0.398786,0.869538,1.10066,1.49437,1.9558,0.251242,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,0.12482,0.358185,0.085942
|tfbs_overrepresentation_jaspar=MA0003.1;0.00492315,MA0004.1;0.765938,MA0006.1;0.14766,MA0007.1;1.35441,MA0009.1;0.678286,MA0014.1;0.0332236,MA0017.1;0.166909,MA0019.1;0.506787,MA0024.1;0.636635,MA0025.1;0.9035,MA0027.1;2.3071,MA0028.1;0.155127,MA0029.1;0.616052,MA0030.1;1.50787,MA0031.1;0.588678,MA0038.1;0.405578,MA0040.1;0.690239,MA0041.1;1.16866,MA0042.1;0.207696,MA0043.1;0.771094,MA0046.1;0.712646,MA0048.1;0.142843,MA0050.1;0.312673,MA0051.1;0.413609,MA0052.1;0.697946,MA0055.1;0.00491474,MA0056.1;0,MA0057.1;0.0312525,MA0058.1;0.202403,MA0059.1;0.212009,MA0060.1;0.313143,MA0061.1;0.363764,MA0063.1;0,MA0066.1;1.02437,MA0067.1;1.01206,MA0068.1;0.132828,MA0069.1;0.698271,MA0070.1;0.688999,MA0071.1;0.311956,MA0072.1;0.680902,MA0073.1;2.00227,MA0074.1;0.363923,MA0076.1;0.534535,MA0077.1;0.660245,MA0078.1;0.443468,MA0081.1;0.651709,MA0083.1;0.77033,MA0084.1;1.33532,MA0087.1;0.728855,MA0088.1;0.204026,MA0089.1;0,MA0090.1;0.700834,MA0091.1;0.290854,MA0092.1;0.251716,MA0093.1;0.485518,MA0095.1;0,MA0098.1;0,MA0100.1;0.353762,MA0101.1;0.219061,MA0103.1;0.519343,MA0105.1;0.0530438,MA0106.1;0.450539,MA0107.1;0.508149,MA0108.2;0.527977,MA0109.1;0,MA0111.1;0.727672,MA0113.1;1.088,MA0114.1;0.111687,MA0115.1;0.773793,MA0116.1;0.147513,MA0117.1;0.742722,MA0119.1;0.219527,MA0122.1;0.761823,MA0124.1;0.959967,MA0125.1;0.887718,MA0130.1;0,MA0131.1;0.502588,MA0132.1;0,MA0133.1;0,MA0135.1;0.806261,MA0136.1;0.38151,MA0139.1;0.0756871,MA0140.1;0.353662,MA0141.1;0.555407,MA0142.1;0.575041,MA0143.1;0.439766,MA0144.1;0.1137,MA0145.1;0.0201868,MA0146.1;0.0138001,MA0147.1;0.773525,MA0148.1;0.293462,MA0149.1;0.223436,MA0062.2;0.204154,MA0035.2;0.940904,MA0039.2;0.00534808,MA0138.2;0.495254,MA0002.2;0.563955,MA0137.2;0.187581,MA0104.2;0.605306,MA0047.2;1.04434,MA0112.2;0.698081,MA0065.2;0.0897174,MA0150.1;0.737147,MA0151.1;0,MA0152.1;0.404987,MA0153.1;0.822355,MA0154.1;1.33637,MA0155.1;0.105935,MA0156.1;1.02086,MA0157.1;0.545026,MA0158.1;0,MA0159.1;0.128669,MA0160.1;0.80274,MA0161.1;0,MA0162.1;0.00307515,MA0163.1;0.0518456,MA0164.1;0.993886,MA0080.2;0.982311,MA0018.2;1.01279,MA0099.2;0.489441,MA0079.2;6.32766e-07,MA0102.2;1.38728,MA0258.1;1.67172,MA0259.1;0.367748,MA0442.1;0
}}
}}

Revision as of 11:56, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:42547657..42547670,+p@chr10:42547657..42547670
+
Mm9::chr10:42547679..42547691,+p@chr10:42547679..42547691
+
Mm9::chr10:43466346..43466362,+p1@1700027J07Rik
Mm9::chr13:41521365..41521379,-p5@Nedd9
Mm9::chr13:54513728..54513750,-p@chr13:54513728..54513750
-
Mm9::chr19:4295623..4295629,+p@chr19:4295623..4295629
+
Mm9::chr1:166815111..166815121,-p@chr1:166815111..166815121
-
Mm9::chr3:127494292..127494308,+p2@Tifa
Mm9::chr5:104754379..104754387,+p1@Mepe
Mm9::chr7:120439029..120439040,+p@chr7:120439029..120439040
+
Mm9::chr8:96879789..96879809,+p@chr8:96879789..96879809
+
Mm9::chr9:21430100..21430106,+p@chr9:21430100..21430106
+
Mm9::chr9:21430427..21430438,+p@chr9:21430427..21430438
+


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
hindlimb bud1.04e-095
stylopod1.04e-095
lower limb segment1.04e-095
multi-limb segment region1.04e-095
pelvic appendage1.04e-095
limb segment1.04e-095
paired limb/fin segment1.04e-095
pelvic appendage bud1.04e-095
subdivision of organism along appendicular axis1.04e-095
leg1.04e-095
hindlimb1.04e-095
hindlimb stylopod1.04e-095
posterior region of body1.04e-095
pelvic complex1.04e-095
hindlimb/pelvic fin field1.04e-095
femur1.92e-084
hindlimb long bone1.92e-084
upper leg bone1.92e-084
bone of hip region1.92e-084
skeleton of limb1.92e-084
pelvic appendage skeleton1.92e-084
subdivision of skeleton1.92e-084
endochondral bone1.92e-084
bone of free limb or fin1.92e-084
bone of appendage girdle complex1.92e-084
endochondral element1.92e-084
hindlimb mesenchyme1.92e-084
limb bone1.92e-084
bone of pelvic complex1.92e-084
long bone1.92e-084
hindlimb bone1.92e-084
limb long bone1.92e-084
leg bone1.92e-084
limb mesenchyme1.92e-084
limb skeleton subdivision1.92e-084
hindlimb bone pre-cartilage condensation1.92e-084
upper leg mesenchyme1.92e-084
hindlimb cartilage element1.92e-084
limb cartilage element1.92e-084
limb bone pre-cartilage condensation1.92e-084
cartilage element1.92e-084
hindlimb skeleton1.92e-084
appendicular skeletal system1.92e-084
appendicular skeleton1.92e-084
limb of embryo1.92e-084
skeleton1.92e-084
femur cartilage element1.92e-084
femur pre-cartilage condensation1.92e-084
spleen1.14e-076
cavity lining1.14e-076
serous membrane1.14e-076
gastrointestinal system mesentery1.14e-076
stomach region1.14e-076
mesentery1.14e-076
gastrointestinal system serosa1.14e-076
mesentery of stomach1.14e-076
gut mesentery1.14e-076
dorsal mesentery1.14e-076
dorsal mesogastrium1.14e-076
peritoneal cavity1.14e-076
spleen primordium1.14e-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)
MA0003.10.00492315
MA0004.10.765938
MA0006.10.14766
MA0007.11.35441
MA0009.10.678286
MA0014.10.0332236
MA0017.10.166909
MA0019.10.506787
MA0024.10.636635
MA0025.10.9035
MA0027.12.3071
MA0028.10.155127
MA0029.10.616052
MA0030.11.50787
MA0031.10.588678
MA0038.10.405578
MA0040.10.690239
MA0041.11.16866
MA0042.10.207696
MA0043.10.771094
MA0046.10.712646
MA0048.10.142843
MA0050.10.312673
MA0051.10.413609
MA0052.10.697946
MA0055.10.00491474
MA0056.10
MA0057.10.0312525
MA0058.10.202403
MA0059.10.212009
MA0060.10.313143
MA0061.10.363764
MA0063.10
MA0066.11.02437
MA0067.11.01206
MA0068.10.132828
MA0069.10.698271
MA0070.10.688999
MA0071.10.311956
MA0072.10.680902
MA0073.12.00227
MA0074.10.363923
MA0076.10.534535
MA0077.10.660245
MA0078.10.443468
MA0081.10.651709
MA0083.10.77033
MA0084.11.33532
MA0087.10.728855
MA0088.10.204026
MA0089.10
MA0090.10.700834
MA0091.10.290854
MA0092.10.251716
MA0093.10.485518
MA0095.10
MA0098.10
MA0100.10.353762
MA0101.10.219061
MA0103.10.519343
MA0105.10.0530438
MA0106.10.450539
MA0107.10.508149
MA0108.20.527977
MA0109.10
MA0111.10.727672
MA0113.11.088
MA0114.10.111687
MA0115.10.773793
MA0116.10.147513
MA0117.10.742722
MA0119.10.219527
MA0122.10.761823
MA0124.10.959967
MA0125.10.887718
MA0130.10
MA0131.10.502588
MA0132.10
MA0133.10
MA0135.10.806261
MA0136.10.38151
MA0139.10.0756871
MA0140.10.353662
MA0141.10.555407
MA0142.10.575041
MA0143.10.439766
MA0144.10.1137
MA0145.10.0201868
MA0146.10.0138001
MA0147.10.773525
MA0148.10.293462
MA0149.10.223436
MA0062.20.204154
MA0035.20.940904
MA0039.20.00534808
MA0138.20.495254
MA0002.20.563955
MA0137.20.187581
MA0104.20.605306
MA0047.21.04434
MA0112.20.698081
MA0065.20.0897174
MA0150.10.737147
MA0151.10
MA0152.10.404987
MA0153.10.822355
MA0154.11.33637
MA0155.10.105935
MA0156.11.02086
MA0157.10.545026
MA0158.10
MA0159.10.128669
MA0160.10.80274
MA0161.10
MA0162.10.00307515
MA0163.10.0518456
MA0164.10.993886
MA0080.20.982311
MA0018.21.01279
MA0099.20.489441
MA0079.26.32766e-07
MA0102.21.38728
MA0258.11.67172
MA0259.10.367748
MA0442.10
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