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MCL coexpression mm9:208: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.76e-31!73;UBERON:0001016!6.81e-31!75;UBERON:0004121!3.24e-30!95;UBERON:0000924!3.24e-30!95;UBERON:0006601!3.24e-30!95;UBERON:0002346!5.98e-29!64;UBERON:0003075!5.98e-29!64;UBERON:0007284!5.98e-29!64;UBERON:0000073!7.65e-27!54;UBERON:0010314!8.68e-27!92;UBERON:0001049!2.57e-25!52;UBERON:0005068!2.57e-25!52;UBERON:0006241!2.57e-25!52;UBERON:0007135!2.57e-25!52;UBERON:0010371!5.33e-25!73;UBERON:0000955!3.06e-22!47;UBERON:0006238!3.06e-22!47;UBERON:0003056!3.81e-22!49;UBERON:0002616!1.17e-21!46;UBERON:0003080!8.73e-19!40;UBERON:0002780!4.05e-18!39;UBERON:0001890!4.05e-18!39;UBERON:0006240!4.05e-18!39;UBERON:0002020!9.23e-18!34;UBERON:0003528!4.61e-15!29;UBERON:0002791!4.61e-15!29;UBERON:0001893!4.61e-15!29;UBERON:0000956!1.29e-10!21;UBERON:0001869!1.29e-10!21;UBERON:0000203!1.29e-10!21;UBERON:0002619!2.10e-09!17;UBERON:0004111!2.14e-09!122;UBERON:0000025!3.67e-09!114;UBERON:0000468!1.14e-07!333;UBERON:0003076!4.32e-07!12;UBERON:0003057!4.32e-07!12;UBERON:0002021!7.09e-07!10;UBERON:0000411!7.09e-07!10;UBERON:0001950!7.09e-07!10
|tfbs_overrepresentation_for_novel_motifs=1.15677,0.472782,0.430626,0.0362994,0.0302145,0.360653,0.535804,0.782837,0.075598,2.48919,0.780801,0.0670848,1.64436,0.265233,0.225204,0,1.00402,0.181975,0.330058,0.346427,0.34538,0.175749,2.55872,0.0296502,0.236835,1.038,0.301016,0.398865,1.04749,0.171865,0.373023,0.678623,0.76121,0.140896,3.95934,0.626995,2.48642,0.865427,0.056243,0.487476,0.0862982,0.680187,0.0866056,0.228917,0.770007,1.3058,0.130728,0.192922,0.0271182,0.491113,0.497135,2.25409,0.249359,0.345318,0.943238,1.45208,0.0114589,0.485548,0.587611,1.9898,0.646878,0.699667,0.302626,0.480792,0.599924,0.183542,0.469298,0.779659,0.22516,0.645209,1.31455,0.25832,6.93366,0.385253,1.85334,0.673127,1.20395,0.39364,0.21687,0.0689327,0.261666,0.187017,0.341652,0.0228474,0.804579,7.50743,1.10347,0.0979011,0.41582,0.932016,0.528571,2.25212,0.250717,0.00593985,1.12239,0.102014,0.0244575,0.25267,1.31993,1.00654,0.023596,0.678177,0.883539,0.166205,0.496465,2.53869,3.25497,0.420893,0.186688,4.21068,0.254383,0.333321,0.357323,1.21202,0.534653,0.0846859,2.05527,0.616822,0.177127,0.0224253,0.389556,0.14722,0.0894506,0.392418,0.581865,1.83161,0.55269,0.688252,0.468027,0.375451,0.319105,0.586741,0.443426,0.0856656,0.553389,0.0325673,0.278794,1.05857,1.2728,1.28785,0.901817,0.473251,0.0949151,0.249098,0.944385,0.383255,0.132401,1.24909,0.282602,4.85878,1.25879,14.8106,0.346528,0.109479,1.01369,0.411175,0.101483,0.118702,0.107377,0.824205,0.519098,1.45991,3.40406,0.471957,0.159827,0.082057,0.297192,0.507994,2.06415
|tfbs_overrepresentation_jaspar=MA0003.1;5.10209,MA0004.1;0.607845,MA0006.1;1.94678,MA0007.1;0.131631,MA0009.1;0.260251,MA0014.1;4.18936,MA0017.1;0.267636,MA0019.1;0.144464,MA0024.1;0.65113,MA0025.1;0.439705,MA0027.1;1.78014,MA0028.1;2.04036,MA0029.1;0.617103,MA0030.1;1.17612,MA0031.1;0.572482,MA0038.1;0.297921,MA0040.1;0.741478,MA0041.1;0.0190927,MA0042.1;0.197034,MA0043.1;1.58516,MA0046.1;0.285948,MA0048.1;3.62458,MA0050.1;0.180939,MA0051.1;0.092624,MA0052.1;0.274867,MA0055.1;0.86813,MA0056.1;0,MA0057.1;0.261187,MA0058.1;0.912757,MA0059.1;0.65189,MA0060.1;1.58147,MA0061.1;0.419202,MA0063.1;0,MA0066.1;0.0837834,MA0067.1;1.32087,MA0068.1;0.0102331,MA0069.1;0.27511,MA0070.1;0.268186,MA0071.1;0.0477117,MA0072.1;0.262182,MA0073.1;0.203172,MA0074.1;0.243107,MA0076.1;2.36195,MA0077.1;0.247052,MA0078.1;0.350644,MA0081.1;0.0220821,MA0083.1;0.330594,MA0084.1;0.829882,MA0087.1;0.29831,MA0088.1;0.676323,MA0089.1;0,MA0090.1;0.115842,MA0091.1;0.359128,MA0092.1;0.116091,MA0093.1;0.679242,MA0095.1;0,MA0098.1;0,MA0100.1;3.65667,MA0101.1;0.217397,MA0103.1;0.494999,MA0105.1;0.69144,MA0106.1;0.360756,MA0107.1;0.00972812,MA0108.2;0.47642,MA0109.1;0,MA0111.1;0.127353,MA0113.1;0.0984349,MA0114.1;0.249179,MA0115.1;0.333331,MA0116.1;1.18803,MA0117.1;0.832079,MA0119.1;0.418439,MA0122.1;0.323899,MA0124.1;0.488052,MA0125.1;0.426393,MA0130.1;0,MA0131.1;2.00243,MA0132.1;0,MA0133.1;0,MA0135.1;0.359267,MA0136.1;0.562317,MA0139.1;1.94424,MA0140.1;0.064511,MA0141.1;0.331162,MA0142.1;0.550541,MA0143.1;0.702938,MA0144.1;0.136296,MA0145.1;2.90861,MA0146.1;5.29454,MA0147.1;0.464698,MA0148.1;0.0410396,MA0149.1;0.0203741,MA0062.2;2.15405,MA0035.2;0.0662996,MA0039.2;5.92286,MA0138.2;0.426506,MA0002.2;0.381211,MA0137.2;0.547775,MA0104.2;1.44714,MA0047.2;0.0882619,MA0112.2;1.17515,MA0065.2;0.325578,MA0150.1;1.28896,MA0151.1;0,MA0152.1;0.0883094,MA0153.1;0.372306,MA0154.1;0.995578,MA0155.1;0.921687,MA0156.1;0.518178,MA0157.1;0.168226,MA0158.1;0,MA0159.1;1.01954,MA0160.1;0.370044,MA0161.1;0,MA0162.1;5.60669,MA0163.1;0.938589,MA0164.1;0.0771648,MA0080.2;0.278716,MA0018.2;2.0187,MA0099.2;0.134134,MA0079.2;5.20897,MA0102.2;0.879116,MA0258.1;1.06209,MA0259.1;1.19107,MA0442.1;0
}}

Latest revision as of 14:53, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:17954736..17954814,-p1@Ccdc28a
Mm9::chr11:30549453..30549470,-p3@Acyp2
Mm9::chr11:30549485..30549498,-p4@Acyp2
Mm9::chr11:30549510..30549523,-p5@Acyp2
Mm9::chr11:54117682..54117738,+p2@Acsl6
Mm9::chr11:69476127..69476138,-p2@Mpdu1
Mm9::chr12:29435230..29435283,-p1@Ttc15
Mm9::chr12:4082575..4082594,+p2@Dnajc27
Mm9::chr12:4082596..4082638,+p1@Dnajc27
Mm9::chr12:71008869..71008876,+p@chr12:71008869..71008876
+
Mm9::chr12:73862116..73862127,+p3@Ppm1a
Mm9::chr13:41345116..41345137,+p5@BC024659
Mm9::chr14:14793700..14793713,-p4@Thoc7
Mm9::chr15:76077268..76077286,+p3@Grina
Mm9::chr15:79763014..79763095,-p2@Cbx7
Mm9::chr15:89284599..89284648,+p2@Mapk8ip2
Mm9::chr16:44139372..44139396,-p5@Atp6v1a
Mm9::chr17:22218258..22218274,-p@chr17:22218258..22218274
-
Mm9::chr17:23908457..23908466,-p4@Flywch1
Mm9::chr17:23908472..23908504,-p2@Flywch1
Mm9::chr17:23908510..23908562,-p1@Flywch1
Mm9::chr17:47832120..47832153,+p1@Frs3
Mm9::chr18:5592429..5592467,-p1@Gm10125
Mm9::chr19:45635059..45635134,+p1@Dpcd
Mm9::chr19:59018084..59018138,-p3@Hspa12a
Mm9::chr1:193541759..193541783,+p5@Lpgat1
Mm9::chr1:37356704..37356715,+p2@Inpp4a
Mm9::chr1:75233073..75233096,+p3@Dnajb2
Mm9::chr2:120676105..120676123,-p1@Ttbk2
Mm9::chr2:120676125..120676153,-p2@Ttbk2
Mm9::chr2:31101562..31101575,+p4@Ncs1
Mm9::chr2:91550742..91550755,-p2@Atg13
Mm9::chr3:107499263..107499266,-p4@Ahcyl1
Mm9::chr3:36512292..36512319,-p1@Bbs7
Mm9::chr4:149148347..149148388,-p2@Slc25a33
Mm9::chr5:18732720..18732808,+p1@Magi2
Mm9::chr6:71781420..71781431,+p2@Immt
Mm9::chr6:91106734..91106759,+p3@Hdac11
Mm9::chr8:119467287..119467324,+p1@Atmin
Mm9::chr8:13890233..13890300,-p1@2410022L05Rik
Mm9::chr8:73891395..73891439,+p4@Use1
Mm9::chrX:160346914..160346925,+p3@Ap1s2
Mm9::chrX:165758314..165758352,+p1@uc009uxy.1
Mm9::chrX:9240076..9240096,-p2@Dynlt3


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
central nervous system1.76e-3173
nervous system6.81e-3175
ectoderm-derived structure3.24e-3095
ectoderm3.24e-3095
presumptive ectoderm3.24e-3095
neurectoderm5.98e-2964
neural plate5.98e-2964
presumptive neural plate5.98e-2964
regional part of nervous system7.65e-2754
structure with developmental contribution from neural crest8.68e-2792
neural tube2.57e-2552
neural rod2.57e-2552
future spinal cord2.57e-2552
neural keel2.57e-2552
ecto-epithelium5.33e-2573
brain3.06e-2247
future brain3.06e-2247
pre-chordal neural plate3.81e-2249
regional part of brain1.17e-2146
anterior neural tube8.73e-1940
regional part of forebrain4.05e-1839
forebrain4.05e-1839
future forebrain4.05e-1839
gray matter9.23e-1834
brain grey matter4.61e-1529
regional part of telencephalon4.61e-1529
telencephalon4.61e-1529
cerebral cortex1.29e-1021
cerebral hemisphere1.29e-1021
pallium1.29e-1021
regional part of cerebral cortex2.10e-0917
anatomical conduit2.14e-09122
tube3.67e-09114
multi-cellular organism1.14e-07333
posterior neural tube4.32e-0712
chordal neural plate4.32e-0712
occipital lobe7.09e-0710
visual cortex7.09e-0710
neocortex7.09e-0710


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)
MA0003.15.10209
MA0004.10.607845
MA0006.11.94678
MA0007.10.131631
MA0009.10.260251
MA0014.14.18936
MA0017.10.267636
MA0019.10.144464
MA0024.10.65113
MA0025.10.439705
MA0027.11.78014
MA0028.12.04036
MA0029.10.617103
MA0030.11.17612
MA0031.10.572482
MA0038.10.297921
MA0040.10.741478
MA0041.10.0190927
MA0042.10.197034
MA0043.11.58516
MA0046.10.285948
MA0048.13.62458
MA0050.10.180939
MA0051.10.092624
MA0052.10.274867
MA0055.10.86813
MA0056.10
MA0057.10.261187
MA0058.10.912757
MA0059.10.65189
MA0060.11.58147
MA0061.10.419202
MA0063.10
MA0066.10.0837834
MA0067.11.32087
MA0068.10.0102331
MA0069.10.27511
MA0070.10.268186
MA0071.10.0477117
MA0072.10.262182
MA0073.10.203172
MA0074.10.243107
MA0076.12.36195
MA0077.10.247052
MA0078.10.350644
MA0081.10.0220821
MA0083.10.330594
MA0084.10.829882
MA0087.10.29831
MA0088.10.676323
MA0089.10
MA0090.10.115842
MA0091.10.359128
MA0092.10.116091
MA0093.10.679242
MA0095.10
MA0098.10
MA0100.13.65667
MA0101.10.217397
MA0103.10.494999
MA0105.10.69144
MA0106.10.360756
MA0107.10.00972812
MA0108.20.47642
MA0109.10
MA0111.10.127353
MA0113.10.0984349
MA0114.10.249179
MA0115.10.333331
MA0116.11.18803
MA0117.10.832079
MA0119.10.418439
MA0122.10.323899
MA0124.10.488052
MA0125.10.426393
MA0130.10
MA0131.12.00243
MA0132.10
MA0133.10
MA0135.10.359267
MA0136.10.562317
MA0139.11.94424
MA0140.10.064511
MA0141.10.331162
MA0142.10.550541
MA0143.10.702938
MA0144.10.136296
MA0145.12.90861
MA0146.15.29454
MA0147.10.464698
MA0148.10.0410396
MA0149.10.0203741
MA0062.22.15405
MA0035.20.0662996
MA0039.25.92286
MA0138.20.426506
MA0002.20.381211
MA0137.20.547775
MA0104.21.44714
MA0047.20.0882619
MA0112.21.17515
MA0065.20.325578
MA0150.11.28896
MA0151.10
MA0152.10.0883094
MA0153.10.372306
MA0154.10.995578
MA0155.10.921687
MA0156.10.518178
MA0157.10.168226
MA0158.10
MA0159.11.01954
MA0160.10.370044
MA0161.10
MA0162.15.60669
MA0163.10.938589
MA0164.10.0771648
MA0080.20.278716
MA0018.22.0187
MA0099.20.134134
MA0079.25.20897
MA0102.20.879116
MA0258.11.06209
MA0259.11.19107
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:208&oldid=3072207"