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MCL coexpression mm9:95: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004122!5.40e-16!5;UBERON:0000162!1.38e-15!3;UBERON:0001353!1.38e-15!3;UBERON:0000163!1.38e-15!3;UBERON:0006866!1.38e-15!3;UBERON:0001046!1.38e-15!3;UBERON:0000164!1.38e-15!3;UBERON:0000931!1.38e-15!3;UBERON:0001008!1.24e-11!19;UBERON:0010147!5.33e-11!2;UBERON:0003937!5.33e-11!2;UBERON:0005399!5.33e-11!2;UBERON:0000161!1.49e-09!5;UBERON:0006554!4.16e-09!18;UBERON:0003064!1.03e-08!14
|tfbs_overrepresentation_for_novel_motifs=0.0613774,0.769322,0.138722,1.28245,0.232642,0.483694,0.286501,0.478344,0.140978,0.0657049,0.0189238,1.08881,0.114506,0.183606,0.400314,0,0.184481,1.16192,0.288527,0.312376,0.138113,0.878068,0.092056,1.44994,0.152525,0.814621,0.500529,0.0824323,0.0252757,0.847819,0.0306053,0.90631,0.949041,0.208982,0.402713,0.45571,3.0099e-05,0.253247,1.57953,0.195533,0.408622,0.141678,0.093949,2.54353,0.399315,0.163695,0.227503,0.0041411,1.68641,0.317441,0.0623379,0.0655955,1.67015,0.259815,0.0814255,0.330747,1.19845,0.0635247,1.3873,0.0974588,0.119602,0.160367,0.656676,0.309954,0.357587,0.0770278,0.864864,0.369339,0.279884,0.263615,0.0603216,1.27008,3.72433e-07,0.314937,3.14229e-05,1.24988,0.532658,0.375211,0.262913,0.225452,1.90631,0.39538,0.292598,0.259785,0.053401,0.000141389,6.87654,0.724671,0.0389511,0.498637,0.180801,0.0549116,0.948071,1.10991,0.00530179,1.08764,0.36315,0.611143,0.227882,0.148902,0.0725433,0.905404,0.0686492,0.840351,0.55399,0.0326624,0.0215311,0.174222,0.239174,0.00308758,0.271246,0.0692727,0.2286,0.208169,0.543526,0.0574271,0.00296855,0.443686,0.36448,0.535148,1.09777,0.725664,1.77464,0.209619,0.217435,0.0261874,0.304688,0.138401,0.142042,0.264682,2.33881,0.272551,0.400232,0.553604,1.71257,1.08227,0.0690061,0.536391,0.505329,0.824305,0.472366,0.145256,0.876611,0.330409,0.317545,0.240058,0.636833,0.787744,1.04793,0.00124417,0.121986,1.55985e-07,0.554433,2.81681,0.781179,0.108842,0.0662058,0.168447,0.746633,0.00391438,0.518391,0.0531438,0.801731,0.0536067,0.80173,1.01245,0.692805,2.86032,0.010439
|tfbs_overrepresentation_jaspar=MA0003.1;1.22536e-08,MA0004.1;0.293291,MA0006.1;0.000486664,MA0007.1;0.0178918,MA0009.1;0.993302,MA0014.1;0.000272252,MA0017.1;0.836294,MA0019.1;0.266487,MA0024.1;0.121478,MA0025.1;0.394618,MA0027.1;1.30073,MA0028.1;0.0315964,MA0029.1;0.783257,MA0030.1;0.803461,MA0031.1;0.696415,MA0038.1;0.228191,MA0040.1;0.164312,MA0041.1;0.016163,MA0042.1;0.0125219,MA0043.1;0.0682997,MA0046.1;0.18417,MA0048.1;0.0257033,MA0050.1;1.30001,MA0051.1;0.243851,MA0052.1;0.171016,MA0055.1;0.633339,MA0056.1;0,MA0057.1;0.185577,MA0058.1;0.0959225,MA0059.1;0.032369,MA0060.1;0.098206,MA0061.1;0.0142351,MA0063.1;0,MA0066.1;1.67829,MA0067.1;0.184131,MA0068.1;2.29419,MA0069.1;1.50663,MA0070.1;0.0422783,MA0071.1;0.159906,MA0072.1;0.040101,MA0073.1;5.75231,MA0074.1;0.15539,MA0076.1;0.00188102,MA0077.1;0.139517,MA0078.1;0.493848,MA0081.1;0.154301,MA0083.1;3.0557,MA0084.1;0.411012,MA0087.1;0.199227,MA0088.1;0.0704672,MA0089.1;0,MA0090.1;1.27687,MA0091.1;0.00214427,MA0092.1;0.813104,MA0093.1;0.473971,MA0095.1;0,MA0098.1;0,MA0100.1;0.00100106,MA0101.1;0.96185,MA0103.1;0.22598,MA0105.1;0.0025897,MA0106.1;1.04468,MA0107.1;0.543417,MA0108.2;0.787466,MA0109.1;0,MA0111.1;0.362275,MA0113.1;0.436899,MA0114.1;0.324447,MA0115.1;1.34436,MA0116.1;0.194229,MA0117.1;0.0584936,MA0119.1;1.71348,MA0122.1;0.859879,MA0124.1;0.154498,MA0125.1;0.117399,MA0130.1;0,MA0131.1;0.125061,MA0132.1;0,MA0133.1;0,MA0135.1;0.0816351,MA0136.1;0.0380293,MA0139.1;0.00788606,MA0140.1;0.0262599,MA0141.1;0.0745663,MA0142.1;0.397759,MA0143.1;0.162166,MA0144.1;0.123591,MA0145.1;0.571184,MA0146.1;0.024458,MA0147.1;0.00422596,MA0148.1;0.217844,MA0149.1;0.00187393,MA0062.2;0.000251783,MA0035.2;0.592196,MA0039.2;0.000807633,MA0138.2;0.246715,MA0002.2;0.288246,MA0137.2;0.071147,MA0104.2;0.00137236,MA0047.2;0.226875,MA0112.2;0.571118,MA0065.2;0.576845,MA0150.1;0.157594,MA0151.1;0,MA0152.1;0.0502408,MA0153.1;0.617508,MA0154.1;0.463125,MA0155.1;0.280756,MA0156.1;0.0318595,MA0157.1;0.565874,MA0158.1;0,MA0159.1;1.98495,MA0160.1;0.691794,MA0161.1;0,MA0162.1;1.33949e-06,MA0163.1;0.00204814,MA0164.1;0.48819,MA0080.2;0.00129794,MA0018.2;0.0424279,MA0099.2;0.112685,MA0079.2;6.58175e-07,MA0102.2;0.452809,MA0258.1;1.01874,MA0259.1;0.0290461,MA0442.1;0
}}

Latest revision as of 14:41, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:107599414..107599464,+p2@Ppp1r12a
Mm9::chr10:116368907..116368923,-p@chr10:116368907..116368923
-
Mm9::chr10:128361004..128361013,-p4@Bloc1s1
Mm9::chr10:14266093..14266104,-p@chr10:14266093..14266104
-
Mm9::chr10:41208692..41208723,-p@chr10:41208692..41208723
-
Mm9::chr10:61188895..61188907,+p@chr10:61188895..61188907
+
Mm9::chr10:61188929..61188936,+p@chr10:61188929..61188936
+
Mm9::chr10:76337225..76337243,-p@chr10:76337225..76337243
-
Mm9::chr10:77520022..77520033,+p@chr10:77520022..77520033
+
Mm9::chr10:77520043..77520048,+p@chr10:77520043..77520048
+
Mm9::chr11:42753132..42753136,+p@chr11:42753132..42753136
+
Mm9::chr11:72812571..72812594,+p2@P2rx1
Mm9::chr11:72812630..72812639,+p4@P2rx1
Mm9::chr11:87912441..87912452,+p12@Cuedc1
Mm9::chr11:89594966..89594985,-p@chr11:89594966..89594985
-
Mm9::chr11:89594994..89595022,-p@chr11:89594994..89595022
-
Mm9::chr11:89595040..89595050,-p@chr11:89595040..89595050
-
Mm9::chr12:58515137..58515153,+p@chr12:58515137..58515153
+
Mm9::chr12:80992112..80992129,-p@chr12:80992112..80992129
-
Mm9::chr12:80992302..80992309,+p@chr12:80992302..80992309
+
Mm9::chr12:81608191..81608194,+p1@2310002D06Rik
Mm9::chr13:47161800..47161811,+p4@Kdm1b
Mm9::chr13:47161817..47161832,+p2@Kdm1b
Mm9::chr13:53734594..53734605,-p2@uc007qnx.1
Mm9::chr14:29722238..29722242,-p@chr14:29722238..29722242
-
Mm9::chr14:34965659..34965672,-p1@Ppyr1
Mm9::chr14:55545845..55545865,-p3@Efs
Mm9::chr14:68331267..68331286,-p@chr14:68331267..68331286
-
Mm9::chr15:36485068..36485103,-p@chr15:36485068..36485103
-
Mm9::chr15:36485291..36485294,-p2@Snx31
Mm9::chr15:36485311..36485334,-p1@Snx31
Mm9::chr15:58237385..58237400,+p@chr15:58237385..58237400
+
Mm9::chr15:84847568..84847571,+p2@Upk3a
Mm9::chr15:84847593..84847630,+p1@Upk3a
Mm9::chr15:84847637..84847642,+p3@Upk3a
Mm9::chr16:38783626..38783638,-p@chr16:38783626..38783638
-
Mm9::chr16:38783715..38783726,-p@chr16:38783715..38783726
-
Mm9::chr16:38783833..38783849,-p@chr16:38783833..38783849
-
Mm9::chr16:38783973..38783979,-p@chr16:38783973..38783979
-
Mm9::chr16:38800306..38800322,-p1@Upk1b
Mm9::chr16:38800330..38800341,-p4@Upk1b
Mm9::chr16:38800348..38800359,-p3@Upk1b
Mm9::chr16:38800390..38800399,-p5@Upk1b
Mm9::chr16:44943814..44943823,+p4@Cd200r3
Mm9::chr16:44943850..44943865,+p2@Cd200r3
Mm9::chr17:12881424..12881431,-p@chr17:12881424..12881431
-
Mm9::chr17:12881635..12881640,-p@chr17:12881635..12881640
-
Mm9::chr17:24078882..24078896,+p2@Sbp
Mm9::chr17:24079336..24079341,+p1@Sbp
Mm9::chr18:25224170..25224198,+p@chr18:25224170..25224198
+
Mm9::chr18:44429732..44429737,+p2@Npy6r
Mm9::chr18:44429756..44429789,+p1@Npy6r
Mm9::chr18:44429795..44429800,+p3@Npy6r
Mm9::chr19:24933890..24933896,-p@chr19:24933890..24933896
-
Mm9::chr19:24936652..24936663,-p6@Pgm5
Mm9::chr19:24936670..24936687,-p4@Pgm5
Mm9::chr19:24936711..24936722,-p5@Pgm5
Mm9::chr19:34791339..34791346,-p@chr19:34791339..34791346
-
Mm9::chr19:34791405..34791413,-p@chr19:34791405..34791413
-
Mm9::chr19:38118250..38118291,-p4@Myof
Mm9::chr19:40586571..40586576,-p@chr19:40586571..40586576
-
Mm9::chr19:40639463..40639477,-p@chr19:40639463..40639477
-
Mm9::chr19:40639485..40639503,-p@chr19:40639485..40639503
-
Mm9::chr19:58073599..58073605,+p@chr19:58073599..58073605
+
Mm9::chr19:7001596..7001609,+p@chr19:7001596..7001609
+
Mm9::chr1:135128602..135128627,+p@chr1:135128602..135128627
+
Mm9::chr1:74077398..74077420,-p@chr1:74077398..74077420
-
Mm9::chr1:74077436..74077452,-p@chr1:74077436..74077452
-
Mm9::chr1:74077455..74077468,-p@chr1:74077455..74077468
-
Mm9::chr1:74077471..74077481,-p@chr1:74077471..74077481
-
Mm9::chr1:75358624..75358639,+p5@Des
Mm9::chr2:130732055..130732069,-p2@ENSMUST00000128176
Mm9::chr2:130838105..130838108,-p@chr2:130838105..130838108
-
Mm9::chr2:130850842..130850861,-p@chr2:130850842..130850861
-
Mm9::chr2:130850883..130850895,-p@chr2:130850883..130850895
-
Mm9::chr2:135755239..135755248,+p@chr2:135755239..135755248
+
Mm9::chr2:35519156..35519171,+p@chr2:35519156..35519171
+
Mm9::chr2:72070352..72070364,-p1@ENSMUST00000128165
p1@uc008kbr.1
Mm9::chr2:9274095..9274107,+p2@ENSMUST00000144870
p2@uc008iha.1
p2@uc008ihb.1
Mm9::chr2:9274108..9274126,+p1@ENSMUST00000144870
p1@uc008iha.1
p1@uc008ihb.1
Mm9::chr2:9809451..9809469,-p6@Gata3
Mm9::chr3:107820573..107820580,-p@chr3:107820573..107820580
-
Mm9::chr3:122817156..122817173,-p@chr3:122817156..122817173
-
Mm9::chr3:122817264..122817301,-p@chr3:122817264..122817301
-
Mm9::chr4:117650200..117650211,+p@chr4:117650200..117650211
+
Mm9::chr4:131493080..131493098,-p12@Epb4.1
Mm9::chr4:138539616..138539638,+p@chr4:138539616..138539638
+
Mm9::chr4:148334463..148334474,+p1@ENSMUST00000153443
Mm9::chr4:41011430..41011458,-p@chr4:41011430..41011458
-
Mm9::chr4:41154091..41154099,-p@chr4:41154091..41154099
-
Mm9::chr4:41578693..41578705,+p4@Dnaic1
Mm9::chr4:41586391..41586438,+p1@ENSMUST00000155382
Mm9::chr4:53416435..53416446,-p1@ENSMUST00000154377
Mm9::chr4:84851024..84851035,+p5@Sh3gl2
Mm9::chr4:84851040..84851053,+p4@Sh3gl2
Mm9::chr5:136514641..136514673,+p2@Upk3b
Mm9::chr5:87332837..87332846,+p@chr5:87332837..87332846
+
Mm9::chr5:87332887..87332894,+p@chr5:87332887..87332894
+
Mm9::chr5:92827077..92827083,+p@chr5:92827077..92827083
+
Mm9::chr6:54101026..54101046,-p1@uc009bzp.1
Mm9::chr7:114836732..114836758,+p@chr7:114836732..114836758
+
Mm9::chr7:114836782..114836792,+p@chr7:114836782..114836792
+
Mm9::chr7:114836798..114836805,+p@chr7:114836798..114836805
+
Mm9::chr7:138317914..138317917,+p1@5430419D17Rik
Mm9::chr7:31388537..31388547,-p@chr7:31388537..31388547
-
Mm9::chr7:31388578..31388584,-p@chr7:31388578..31388584
-
Mm9::chr7:31388597..31388604,-p@chr7:31388597..31388604
-
Mm9::chr7:31388822..31388831,-p@chr7:31388822..31388831
-
Mm9::chr7:31390216..31390224,-p@chr7:31390216..31390224
-
Mm9::chr7:31391935..31391967,+p@chr7:31391935..31391967
+
Mm9::chr7:31397750..31397763,-p2@Upk1a
Mm9::chr7:31397780..31397790,-p3@Upk1a
Mm9::chr7:4609346..4609385,-p@chr7:4609346..4609385
-
Mm9::chr7:74904650..74904665,-p2@Synm
Mm9::chr8:24250573..24250599,+p4@Ank1
Mm9::chr8:24250624..24250640,+p6@Ank1
Mm9::chr8:35074682..35074730,+p@chr8:35074682..35074730
+
Mm9::chr8:46849227..46849287,+p8@Sorbs2
Mm9::chr8:46849292..46849305,+p26@Sorbs2
Mm9::chr9:109794961..109794968,-p@chr9:109794961..109794968
-
Mm9::chr9:21905578..21905596,+p@chr9:21905578..21905596
+
Mm9::chr9:21912671..21912688,-p@chr9:21912671..21912688
-
Mm9::chr9:30978105..30978109,-p@chr9:30978105..30978109
-
Mm9::chr9:30978116..30978124,-p@chr9:30978116..30978124
-
Mm9::chr9:44262798..44262809,-p2@Upk2
Mm9::chr9:44262813..44262825,-p3@Upk2
Mm9::chr9:44262840..44262856,-p1@Upk2
Mm9::chr9:48260437..48260446,+p@chr9:48260437..48260446
+
Mm9::chr9:65347718..65347722,-p@chr9:65347718..65347722
-
Mm9::chr9:65360513..65360526,-p@chr9:65360513..65360526
-
Mm9::chr9:74005044..74005065,+p@chr9:74005044..74005065
+
Mm9::chr9:96425825..96425834,-p@chr9:96425825..96425834
-
Mm9::chr9:96425983..96425992,+p@chr9:96425983..96425992
+
Mm9::chr9:99533062..99533077,+p@chr9:99533062..99533077
+
Mm9::chrX:156362847..156362870,+p@chrX:156362847..156362870
+


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:0030018Z disc0.00173554666552864
GO:0031674I band0.00173554666552864
GO:0001601peptide YY receptor activity0.00173554666552864
GO:0030017sarcomere0.00539675085493983
GO:0044449contractile fiber part0.00539675085493983
GO:0030016myofibril0.00539675085493983
GO:0007618mating0.00539675085493983
GO:0043292contractile fiber0.00539675085493983
GO:0004983neuropeptide Y receptor activity0.00688109482655169
GO:0042923neuropeptide binding0.0341291961064185
GO:0008188neuropeptide receptor activity0.0341291961064185
GO:0032753positive regulation of interleukin-4 production0.0345148742672437



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
genitourinary system5.40e-165
cloaca1.38e-153
anal region1.38e-153
embryonic cloaca1.38e-153
terminal part of digestive tract1.38e-153
hindgut1.38e-153
primitive urogenital sinus1.38e-153
proctodeum1.38e-153
renal system1.24e-1119
male accessory sex gland5.33e-112
sex gland5.33e-112
male reproductive gland5.33e-112
orifice1.49e-095
urinary system structure4.16e-0918
intermediate mesoderm1.03e-0814


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)
MA0003.11.22536e-08
MA0004.10.293291
MA0006.10.000486664
MA0007.10.0178918
MA0009.10.993302
MA0014.10.000272252
MA0017.10.836294
MA0019.10.266487
MA0024.10.121478
MA0025.10.394618
MA0027.11.30073
MA0028.10.0315964
MA0029.10.783257
MA0030.10.803461
MA0031.10.696415
MA0038.10.228191
MA0040.10.164312
MA0041.10.016163
MA0042.10.0125219
MA0043.10.0682997
MA0046.10.18417
MA0048.10.0257033
MA0050.11.30001
MA0051.10.243851
MA0052.10.171016
MA0055.10.633339
MA0056.10
MA0057.10.185577
MA0058.10.0959225
MA0059.10.032369
MA0060.10.098206
MA0061.10.0142351
MA0063.10
MA0066.11.67829
MA0067.10.184131
MA0068.12.29419
MA0069.11.50663
MA0070.10.0422783
MA0071.10.159906
MA0072.10.040101
MA0073.15.75231
MA0074.10.15539
MA0076.10.00188102
MA0077.10.139517
MA0078.10.493848
MA0081.10.154301
MA0083.13.0557
MA0084.10.411012
MA0087.10.199227
MA0088.10.0704672
MA0089.10
MA0090.11.27687
MA0091.10.00214427
MA0092.10.813104
MA0093.10.473971
MA0095.10
MA0098.10
MA0100.10.00100106
MA0101.10.96185
MA0103.10.22598
MA0105.10.0025897
MA0106.11.04468
MA0107.10.543417
MA0108.20.787466
MA0109.10
MA0111.10.362275
MA0113.10.436899
MA0114.10.324447
MA0115.11.34436
MA0116.10.194229
MA0117.10.0584936
MA0119.11.71348
MA0122.10.859879
MA0124.10.154498
MA0125.10.117399
MA0130.10
MA0131.10.125061
MA0132.10
MA0133.10
MA0135.10.0816351
MA0136.10.0380293
MA0139.10.00788606
MA0140.10.0262599
MA0141.10.0745663
MA0142.10.397759
MA0143.10.162166
MA0144.10.123591
MA0145.10.571184
MA0146.10.024458
MA0147.10.00422596
MA0148.10.217844
MA0149.10.00187393
MA0062.20.000251783
MA0035.20.592196
MA0039.20.000807633
MA0138.20.246715
MA0002.20.288246
MA0137.20.071147
MA0104.20.00137236
MA0047.20.226875
MA0112.20.571118
MA0065.20.576845
MA0150.10.157594
MA0151.10
MA0152.10.0502408
MA0153.10.617508
MA0154.10.463125
MA0155.10.280756
MA0156.10.0318595
MA0157.10.565874
MA0158.10
MA0159.11.98495
MA0160.10.691794
MA0161.10
MA0162.11.33949e-06
MA0163.10.00204814
MA0164.10.48819
MA0080.20.00129794
MA0018.20.0424279
MA0099.20.112685
MA0079.26.58175e-07
MA0102.20.452809
MA0258.11.01874
MA0259.10.0290461
MA0442.10
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