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MCL coexpression mm9:117: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|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
}}
}}

Revision as of 17:49, 26 November 2012


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)

{{{tfbs_overrepresentation_jaspar}}}

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