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MCL coexpression mm9:117: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000993!7.47e-44!1;UBERON:0000474!1.98e-20!9;UBERON:0003100!5.67e-17!11;UBERON:0000992!8.02e-16!3;UBERON:0005156!6.33e-08!26;UBERON:0000990!6.33e-08!26;UBERON:0003134!8.61e-07!8
|ontology_enrichment_uberon=UBERON:0000993!7.47e-44!1;UBERON:0000474!1.98e-20!9;UBERON:0003100!5.67e-17!11;UBERON:0000992!8.02e-16!3;UBERON:0005156!6.33e-08!26;UBERON:0000990!6.33e-08!26;UBERON:0003134!8.61e-07!8
|tfbs_overrepresentation_for_novel_motifs=0.201923,0.0292058,0.155088,0.454414,0.688551,0.502453,0.0971588,0.135923,0.433329,0.0141151,0.0208106,0.79966,0.0530151,0.107311,0.328394,0,0.0374195,0.637427,0.151298,0.107997,1.53167,0.0254327,0.0369119,0.378239,0.0901272,0.132261,0.348585,0.0505267,0.0314273,0.103672,0.0127755,0.239752,0.0937075,0.672872,0.01881,0.0557238,0.000122154,0.0282695,1.35407,0.00582596,0.367653,0.109668,0.00903257,0.469897,0.00901395,0.0748456,0.0915459,0.136925,0.0710409,0.126897,0.0332413,0.319425,0.0863369,0.128061,0.13683,0.113503,0.872635,0.0256835,0.155166,0.039048,0.0609618,0.0135092,0.132958,0.125822,0.0440058,0.646587,0.214489,0.470826,0.814581,0.354642,0.00026216,0.0989822,3.6017e-09,0.914034,3.73838e-05,0.0416007,0.427928,0.214331,1.19149,1.02991,0.686976,0.162009,1.18559,2.21431,0.0982062,2.28007e-09,6.15002e-06,0.0253791,0.0945744,0.608676,0.259826,0.10037,0.918122,1.14245,0.0495908,0.333599,0.608617,0.926039,0.0208537,0.491385,1.88983,0.239468,0.380383,0.576972,0.0331356,0.00211973,0.0486975,0.249755,0.0244948,0.00710963,0.308191,0.120437,0.107949,0.0689588,0.731126,0.250755,3.10459e-06,0.300537,0.0377435,0.888331,0.157397,0.501131,0.726859,0.0842066,0.302326,0.20688,0.390819,0.245907,0.213541,1.16982,0.727512,0.15784,0.195432,0.993615,0.27943,0.0550531,1.54677,0.214665,0.24612,0.945714,0.580938,0.621353,0.769755,0.0715888,0.129011,0.0137416,0.0934674,0.908318,0.980868,2.16958e-05,0.00770548,4.87609e-10,1.30716,0.0700791,0.449244,0.172377,0.321274,0.164451,0.320685,0.057614,0.252435,0.0978366,0.207302,0.184433,0.300342,0.247018,0.4186,3.65969,8.5631e-06
|tfbs_overrepresentation_for_novel_motifs=0.201923,0.0292058,0.155088,0.454414,0.688551,0.502453,0.0971588,0.135923,0.433329,0.0141151,0.0208106,0.79966,0.0530151,0.107311,0.328394,0,0.0374195,0.637427,0.151298,0.107997,1.53167,0.0254327,0.0369119,0.378239,0.0901272,0.132261,0.348585,0.0505267,0.0314273,0.103672,0.0127755,0.239752,0.0937075,0.672872,0.01881,0.0557238,0.000122154,0.0282695,1.35407,0.00582596,0.367653,0.109668,0.00903257,0.469897,0.00901395,0.0748456,0.0915459,0.136925,0.0710409,0.126897,0.0332413,0.319425,0.0863369,0.128061,0.13683,0.113503,0.872635,0.0256835,0.155166,0.039048,0.0609618,0.0135092,0.132958,0.125822,0.0440058,0.646587,0.214489,0.470826,0.814581,0.354642,0.00026216,0.0989822,3.6017e-09,0.914034,3.73838e-05,0.0416007,0.427928,0.214331,1.19149,1.02991,0.686976,0.162009,1.18559,2.21431,0.0982062,2.28007e-09,6.15002e-06,0.0253791,0.0945744,0.608676,0.259826,0.10037,0.918122,1.14245,0.0495908,0.333599,0.608617,0.926039,0.0208537,0.491385,1.88983,0.239468,0.380383,0.576972,0.0331356,0.00211973,0.0486975,0.249755,0.0244948,0.00710963,0.308191,0.120437,0.107949,0.0689588,0.731126,0.250755,3.10459e-06,0.300537,0.0377435,0.888331,0.157397,0.501131,0.726859,0.0842066,0.302326,0.20688,0.390819,0.245907,0.213541,1.16982,0.727512,0.15784,0.195432,0.993615,0.27943,0.0550531,1.54677,0.214665,0.24612,0.945714,0.580938,0.621353,0.769755,0.0715888,0.129011,0.0137416,0.0934674,0.908318,0.980868,2.16958e-05,0.00770548,4.87609e-10,1.30716,0.0700791,0.449244,0.172377,0.321274,0.164451,0.320685,0.057614,0.252435,0.0978366,0.207302,0.184433,0.300342,0.247018,0.4186,3.65969,8.5631e-06
|tfbs_overrepresentation_jaspar=MA0003.1;2.40174e-11,MA0004.1;0.292808,MA0006.1;0.0017128,MA0007.1;0.072144,MA0009.1;0.267293,MA0014.1;4.06073e-09,MA0017.1;0.010844,MA0019.1;1.56327,MA0024.1;0.222456,MA0025.1;1.68546,MA0027.1;1.4282,MA0028.1;0.00221557,MA0029.1;0.201651,MA0030.1;0.0568976,MA0031.1;0.17544,MA0038.1;1.37467,MA0040.1;0.280806,MA0041.1;1.506,MA0042.1;0.663912,MA0043.1;0.119104,MA0046.1;0.306875,MA0048.1;0.402036,MA0050.1;0.234932,MA0051.1;0.140921,MA0052.1;0.0855944,MA0055.1;2.48452,MA0056.1;0,MA0057.1;0.0391943,MA0058.1;0.197352,MA0059.1;0.131951,MA0060.1;0.549207,MA0061.1;0.459555,MA0063.1;0,MA0066.1;0.121883,MA0067.1;0.263733,MA0068.1;0.0698807,MA0069.1;0.605625,MA0070.1;1.47271,MA0071.1;4.55105,MA0072.1;0.570233,MA0073.1;0.0462031,MA0074.1;0.563525,MA0076.1;0.0155469,MA0077.1;0.247434,MA0078.1;0.0669635,MA0081.1;0.169558,MA0083.1;2.44959,MA0084.1;1.28283,MA0087.1;1.63608,MA0088.1;0.0665107,MA0089.1;0,MA0090.1;0.218428,MA0091.1;0.715452,MA0092.1;0.219059,MA0093.1;0.26313,MA0095.1;0,MA0098.1;0,MA0100.1;0.0274007,MA0101.1;0.377151,MA0103.1;1.04347,MA0105.1;0.044961,MA0106.1;0.184697,MA0107.1;0.434462,MA0108.2;1.68275,MA0109.1;0,MA0111.1;0.796206,MA0113.1;0.52495,MA0114.1;0.0547267,MA0115.1;0.120443,MA0116.1;0.00615441,MA0117.1;0.105458,MA0119.1;0.7426,MA0122.1;0.114557,MA0124.1;0.647588,MA0125.1;0.539373,MA0130.1;0,MA0131.1;0.0245038,MA0132.1;0,MA0133.1;0,MA0135.1;0.425354,MA0136.1;0.401766,MA0139.1;0.0480572,MA0140.1;0.527006,MA0141.1;5.94291,MA0142.1;0.371737,MA0143.1;0.0649116,MA0144.1;0.100688,MA0145.1;0.0166839,MA0146.1;1.40279e-06,MA0147.1;0.000605743,MA0148.1;1.28274,MA0149.1;0.000393672,MA0062.2;0.00365957,MA0035.2;0.791261,MA0039.2;1.7345e-05,MA0138.2;0.245246,MA0002.2;0.941218,MA0137.2;0.721145,MA0104.2;0.0013753,MA0047.2;0.717487,MA0112.2;0.45427,MA0065.2;0.130308,MA0150.1;1.08279,MA0151.1;0,MA0152.1;0.46678,MA0153.1;0.44714,MA0154.1;0.120318,MA0155.1;0.0193226,MA0156.1;0.230881,MA0157.1;0.585073,MA0158.1;0,MA0159.1;0.0866703,MA0160.1;1.00377,MA0161.1;0,MA0162.1;1.04729e-07,MA0163.1;0.0147624,MA0164.1;0.629284,MA0080.2;0.438212,MA0018.2;0.0410487,MA0099.2;0.449176,MA0079.2;3.86323e-07,MA0102.2;0.560211,MA0258.1;1.43792,MA0259.1;7.02944e-05,MA0442.1;0
}}
}}

Revision as of 11:12, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:107882075..107882083,-p@chr10:107882075..107882083
-
Mm9::chr10:61606665..61606672,-p6@2010107G23Rik
Mm9::chr10:68711399..68711404,+p@chr10:68711399..68711404
+
Mm9::chr11:115152848..115152872,-p@chr11:115152848..115152872
-
Mm9::chr11:53246849..53246859,+p1@Gdf9
Mm9::chr11:69144939..69144953,+p@chr11:69144939..69144953
+
Mm9::chr12:16747009..16747063,-p2@Greb1
Mm9::chr12:16760000..16760014,-p@chr12:16760000..16760014
-
Mm9::chr12:16760117..16760124,-p@chr12:16760117..16760124
-
Mm9::chr12:68752360..68752363,+p@chr12:68752360..68752363
+
Mm9::chr12:77278048..77278058,-p2@Esr2
Mm9::chr12:77278238..77278252,-p1@Esr2
Mm9::chr13:54885349..54885354,+p1@Eif4e1b
Mm9::chr13:65307269..65307277,-p1@Nlrp4f
Mm9::chr13:87803080..87803083,+p@chr13:87803080..87803083
+
Mm9::chr13:87806955..87806960,+p@chr13:87806955..87806960
+
Mm9::chr13:95779937..95779945,+p@chr13:95779937..95779945
+
Mm9::chr13:95779965..95779983,+p@chr13:95779965..95779983
+
Mm9::chr13:96093557..96093561,+p6@Zbed3
Mm9::chr14:71052888..71052893,-p2@Npm2
Mm9::chr15:10106983..10106998,+p11@Prlr
Mm9::chr15:10107013..10107020,+p19@Prlr
Mm9::chr15:37362799..37362815,-p1@ENSMUST00000128804
Mm9::chr15:72882667..72882675,-p@chr15:72882667..72882675
-
Mm9::chr15:76407178..76407182,-p@chr15:76407178..76407182
-
Mm9::chr16:36924738..36924754,+p7@Golgb1
Mm9::chr16:58617086..58617092,-p1@Gm813
Mm9::chr16:58638504..58638523,-p1@E330017A01Rik
Mm9::chr16:76318854..76318863,-p@chr16:76318854..76318863
-
Mm9::chr17:31138881..31138887,+p@chr17:31138881..31138887
+
Mm9::chr17:36084106..36084115,+p1@Gm8801
Mm9::chr17:68305280..68305292,-p@chr17:68305280..68305292
-
Mm9::chr17:68305337..68305348,-p@chr17:68305337..68305348
-
Mm9::chr17:86474670..86474675,-p@chr17:86474670..86474675
-
Mm9::chr18:34568139..34568148,+p4@Pkd2l2
Mm9::chr18:34568160..34568165,+p5@Pkd2l2
Mm9::chr19:10995119..10995125,-p1@Zp1
Mm9::chr19:11771539..11771547,+p1@Gm97
Mm9::chr1:114682122..114682124,+p@chr1:114682122..114682124
+
Mm9::chr1:134927157..134927163,-p2@Mdm4
Mm9::chr1:138842776..138842782,-p@chr1:138842776..138842782
-
Mm9::chr1:138846168..138846176,-p14@Nr5a2
Mm9::chr1:158200818..158200829,-p@chr1:158200818..158200829
-
Mm9::chr1:158200867..158200876,-p@chr1:158200867..158200876
-
Mm9::chr1:158200894..158200897,-p@chr1:158200894..158200897
-
Mm9::chr1:158200905..158200921,-p@chr1:158200905..158200921
-
Mm9::chr1:158200952..158200959,-p@chr1:158200952..158200959
-
Mm9::chr1:58449436..58449442,+p8@Bzw1
Mm9::chr1:65090359..65090363,+p@chr1:65090359..65090363
+
Mm9::chr1:79857869..79857878,-p@chr1:79857869..79857878
-
Mm9::chr1:93074296..93074300,+p@chr1:93074296..93074300
+
Mm9::chr1:95973600..95973604,+p@chr1:95973600..95973604
+
Mm9::chr2:145927410..145927415,+p@chr2:145927410..145927415
+
Mm9::chr2:93709258..93709260,-p1@Accsl
Mm9::chr3:104897909..104897914,+p@chr3:104897909..104897914
+
Mm9::chr3:137724879..137724884,+p@chr3:137724879..137724884
+
Mm9::chr3:141594530..141594540,-p16@Bmpr1b
Mm9::chr3:151498894..151498908,-p4@Ptgfr
Mm9::chr3:151498931..151498943,-p6@Ptgfr
Mm9::chr4:136702613..136702617,+p@chr4:136702613..136702617
+
Mm9::chr4:140298554..140298559,-p1@Padi6
Mm9::chr4:143752549..143752554,-p1@Oog3
Mm9::chr4:149057252..149057255,-p@chr4:149057252..149057255
-
Mm9::chr4:155424607..155424615,-p@chr4:155424607..155424615
-
Mm9::chr4:75628669..75628692,-p@chr4:75628669..75628692
-
Mm9::chr5:119776018..119776050,+p@chr5:119776018..119776050
+
Mm9::chr5:123462885..123462889,-p35@Kdm2b
Mm9::chr5:136455974..136455978,+p1@Zp3
Mm9::chr6:115894954..115894961,+p1@H1foo
Mm9::chr6:136364088..136364093,-p1@E330021D16Rik
Mm9::chr6:50581122..50581124,-p@chr6:50581122..50581124
-
Mm9::chr6:83409099..83409106,-p@chr6:83409099..83409106
-
Mm9::chr6:87054738..87054746,+p1@D6Ertd527e
Mm9::chr7:103796147..103796196,+p@chr7:103796147..103796196
+
Mm9::chr7:103796600..103796621,+p@chr7:103796600..103796621
+
Mm9::chr7:11273140..11273141,+p1@Nlrp4b
Mm9::chr7:114310501..114310505,+p2@Nlrp14
Mm9::chr7:127288800..127288806,-p1@Zp2
Mm9::chr7:54231273..54231283,-p1@C86187
Mm9::chr7:82925631..82925643,-p@chr7:82925631..82925643
-
Mm9::chr7:82925645..82925656,-p@chr7:82925645..82925656
-
Mm9::chr7:82935964..82935968,-p@chr7:82935964..82935968
-
Mm9::chr7:91461243..91461249,+p@chr7:91461243..91461249
+
Mm9::chr8:106819630..106819633,+p@chr8:106819630..106819633
+
Mm9::chr8:128375027..128375036,-p@chr8:128375027..128375036
-
Mm9::chr8:3659767..3659769,+p@chr8:3659767..3659769
+
Mm9::chr8:67542478..67542487,-p1@Trim61
Mm9::chr8:8457435..8457437,-p@chr8:8457435..8457437
-
Mm9::chr9:101764724..101764731,-p5@uc009rfm.1
Mm9::chr9:110231661..110231693,+p@chr9:110231661..110231693
+
Mm9::chr9:120698923..120698928,-p@chr9:120698923..120698928
-
Mm9::chr9:20764229..20764236,-p7@Dnmt1
Mm9::chr9:50924104..50924111,+p1@Btg4
Mm9::chr9:51855257..51855268,+p12@Rdx
Mm9::chr9:54041326..54041330,-p1@Cyp19a1
Mm9::chr9:75195562..75195570,+p2@Bcl2l10
Mm9::chr9:75195696..75195700,+p1@Bcl2l10
Mm9::chrX:111398166..111398180,+p@chrX:111398166..111398180
+
Mm9::chrX:5660533..5660541,-p1@AU022751
Mm9::chrX:5897835..5897844,-p1@Bmp15


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:0022414reproductive process0.0139101961634907
GO:0007338single fertilization0.0139101961634907
GO:0009566fertilization0.0151484796186042
GO:0000003reproduction0.0151484796186042
GO:0019953sexual reproduction0.0198270405963028
GO:0007339binding of sperm to zona pellucida0.0308695307718807
GO:0035036sperm-egg recognition0.0308695307718807
GO:0009988cell-cell recognition0.0308695307718807



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
oviduct7.47e-441
female reproductive system1.98e-209
female organism5.67e-1711
female gonad8.02e-163
reproductive structure6.33e-0826
reproductive system6.33e-0826
female reproductive organ8.61e-078


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)
MA0003.12.40174e-11
MA0004.10.292808
MA0006.10.0017128
MA0007.10.072144
MA0009.10.267293
MA0014.14.06073e-09
MA0017.10.010844
MA0019.11.56327
MA0024.10.222456
MA0025.11.68546
MA0027.11.4282
MA0028.10.00221557
MA0029.10.201651
MA0030.10.0568976
MA0031.10.17544
MA0038.11.37467
MA0040.10.280806
MA0041.11.506
MA0042.10.663912
MA0043.10.119104
MA0046.10.306875
MA0048.10.402036
MA0050.10.234932
MA0051.10.140921
MA0052.10.0855944
MA0055.12.48452
MA0056.10
MA0057.10.0391943
MA0058.10.197352
MA0059.10.131951
MA0060.10.549207
MA0061.10.459555
MA0063.10
MA0066.10.121883
MA0067.10.263733
MA0068.10.0698807
MA0069.10.605625
MA0070.11.47271
MA0071.14.55105
MA0072.10.570233
MA0073.10.0462031
MA0074.10.563525
MA0076.10.0155469
MA0077.10.247434
MA0078.10.0669635
MA0081.10.169558
MA0083.12.44959
MA0084.11.28283
MA0087.11.63608
MA0088.10.0665107
MA0089.10
MA0090.10.218428
MA0091.10.715452
MA0092.10.219059
MA0093.10.26313
MA0095.10
MA0098.10
MA0100.10.0274007
MA0101.10.377151
MA0103.11.04347
MA0105.10.044961
MA0106.10.184697
MA0107.10.434462
MA0108.21.68275
MA0109.10
MA0111.10.796206
MA0113.10.52495
MA0114.10.0547267
MA0115.10.120443
MA0116.10.00615441
MA0117.10.105458
MA0119.10.7426
MA0122.10.114557
MA0124.10.647588
MA0125.10.539373
MA0130.10
MA0131.10.0245038
MA0132.10
MA0133.10
MA0135.10.425354
MA0136.10.401766
MA0139.10.0480572
MA0140.10.527006
MA0141.15.94291
MA0142.10.371737
MA0143.10.0649116
MA0144.10.100688
MA0145.10.0166839
MA0146.11.40279e-06
MA0147.10.000605743
MA0148.11.28274
MA0149.10.000393672
MA0062.20.00365957
MA0035.20.791261
MA0039.21.7345e-05
MA0138.20.245246
MA0002.20.941218
MA0137.20.721145
MA0104.20.0013753
MA0047.20.717487
MA0112.20.45427
MA0065.20.130308
MA0150.11.08279
MA0151.10
MA0152.10.46678
MA0153.10.44714
MA0154.10.120318
MA0155.10.0193226
MA0156.10.230881
MA0157.10.585073
MA0158.10
MA0159.10.0866703
MA0160.11.00377
MA0161.10
MA0162.11.04729e-07
MA0163.10.0147624
MA0164.10.629284
MA0080.20.438212
MA0018.20.0410487
MA0099.20.449176
MA0079.23.86323e-07
MA0102.20.560211
MA0258.11.43792
MA0259.17.02944e-05
MA0442.10
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