Personal tools

MCL coexpression mm9:97

From FANTOM5_SSTAR

Revision as of 14:41, 17 September 2013 by Autoedit (talk | contribs)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126614056..126614086,-p@chr10:126614056..126614086
-
Mm9::chr10:128338020..128338031,+p@chr10:128338020..128338031
+
Mm9::chr10:79144892..79144906,+p2@Cdc34
Mm9::chr11:121007460..121007474,+p1@Tex19.1
Mm9::chr11:121818034..121818047,-p1@ENSMUST00000130783
Mm9::chr11:57642551..57642567,-p@chr11:57642551..57642567
-
Mm9::chr11:57642737..57642748,-p@chr11:57642737..57642748
-
Mm9::chr11:57642948..57642962,-p@chr11:57642948..57642962
-
Mm9::chr11:57645196..57645205,+p@chr11:57645196..57645205
+
Mm9::chr11:57645265..57645268,-p@chr11:57645265..57645268
-
Mm9::chr11:57645506..57645523,-p1@Hand1
Mm9::chr11:57645586..57645597,-p2@Hand1
Mm9::chr11:57645644..57645649,-p3@Hand1
Mm9::chr11:78698925..78698930,+p@chr11:78698925..78698930
+
Mm9::chr11:97663231..97663269,+p11@Lasp1
Mm9::chr12:19960054..19960058,+p@chr12:19960054..19960058
+
Mm9::chr12:57714257..57714278,-p1@Nkx2-9
Mm9::chr12:57714288..57714305,-p2@Nkx2-9
Mm9::chr12:87810964..87810976,-p@chr12:87810964..87810976
-
Mm9::chr12:87811059..87811072,+p3@Esrrb
Mm9::chr12:87811081..87811100,+p2@Esrrb
Mm9::chr13:109236868..109236869,+p@chr13:109236868..109236869
+
Mm9::chr13:21271819..21271835,+p6@Trim27
Mm9::chr13:68409910..68409914,+p@chr13:68409910..68409914
+
Mm9::chr14:120705667..120705683,+p2@Mbnl2
Mm9::chr14:55556576..55556586,+p@chr14:55556576..55556586
+
Mm9::chr14:55556592..55556622,+p@chr14:55556592..55556622
+
Mm9::chr14:55556656..55556665,+p@chr14:55556656..55556665
+
Mm9::chr14:55557268..55557274,+p14@Cmtm5
Mm9::chr14:55557307..55557316,+p11@Cmtm5
Mm9::chr14:55557319..55557330,+p7@Cmtm5
Mm9::chr14:55557416..55557422,+p13@Cmtm5
Mm9::chr14:71173054..71173065,+p4@Dok2
Mm9::chr15:76500241..76500250,-p3@Foxh1
Mm9::chr15:85412239..85412250,-p4@Wnt7b
Mm9::chr16:17759671..17759680,+p6@Klhl22
Mm9::chr16:36708375..36708390,+p@chr16:36708375..36708390
+
Mm9::chr16:44262965..44262975,-p@chr16:44262965..44262975
-
Mm9::chr16:48310540..48310579,+p1@Dppa2
Mm9::chr16:66852878..66852880,+p@chr16:66852878..66852880
+
Mm9::chr16:8792395..8792419,-p3@Usp7
Mm9::chr17:28495639..28495643,-p10@Tulp1
Mm9::chr17:28495649..28495673,-p2@Tulp1
Mm9::chr17:28495676..28495693,-p5@Tulp1
Mm9::chr17:56564557..56564604,-p@chr17:56564557..56564604
-
Mm9::chr17:66833174..66833180,-p@chr17:66833174..66833180
-
Mm9::chr19:10680029..10680044,+p3@Ddb1
Mm9::chr19:22011787..22011802,+p@chr19:22011787..22011802
+
Mm9::chr19:53750863..53750906,+p@chr19:53750863..53750906
+
Mm9::chr1:135557383..135557395,-p5@Zbed6
Mm9::chr1:135557400..135557421,-p4@Zbed6
Mm9::chr1:174143273..174143293,-p@chr1:174143273..174143293
-
Mm9::chr1:174143295..174143309,-p@chr1:174143295..174143309
-
Mm9::chr2:10292121..10292144,+p1@Sfmbt2
Mm9::chr2:10293963..10293974,+p3@Sfmbt2
Mm9::chr2:10302178..10302183,+p@chr2:10302178..10302183
+
Mm9::chr2:104399335..104399345,+p1@4930500J02Rik
Mm9::chr2:10444938..10444948,+p@chr2:10444938..10444948
+
Mm9::chr2:153475178..153475196,+p1@Dnmt3b
Mm9::chr2:153475210..153475252,+p2@Dnmt3b
Mm9::chr2:155572913..155572925,+p@chr2:155572913..155572925
+
Mm9::chr2:168592636..168592651,-p1@Sall4
Mm9::chr2:31428221..31428244,+p2@Fubp3
Mm9::chr2:5766063..5766108,+p2@Nudt5
Mm9::chr4:132595397..132595410,+p12@Ahdc1
Mm9::chr4:132908802..132908812,-p14@Wdtc1
Mm9::chr4:133574662..133574669,-p2@Lin28a
Mm9::chr4:133574713..133574738,-p1@Lin28a
Mm9::chr4:133574744..133574751,-p3@Lin28a
Mm9::chr4:98393435..98393457,+p2@L1td1
Mm9::chr4:98393464..98393474,+p3@L1td1
Mm9::chr4:98393477..98393496,+p1@L1td1
Mm9::chr4:9880126..9880128,+p@chr4:9880126..9880128
+
Mm9::chr5:109984555..109984566,-p@chr5:109984555..109984566
-
Mm9::chr5:109984575..109984603,-p@chr5:109984575..109984603
-
Mm9::chr5:30062362..30062371,+p6@Dnajb6
Mm9::chr5:66542630..66542639,-p16@Rbm47
Mm9::chr5:67819033..67819052,-p5@Bend4
Mm9::chr5:73893864..73893877,+p@chr5:73893864..73893877
+
Mm9::chr5:73893884..73893893,+p@chr5:73893884..73893893
+
Mm9::chr5:73893898..73893914,+p@chr5:73893898..73893914
+
Mm9::chr5:73893917..73893928,+p@chr5:73893917..73893928
+
Mm9::chr6:122774653..122774665,+p@chr6:122774653..122774665
+
Mm9::chr6:124424875..124424886,+p@chr6:124424875..124424886
+
Mm9::chr6:12861081..12861085,+p@chr6:12861081..12861085
+
Mm9::chr6:140571128..140571148,+p10@Aebp2
Mm9::chr7:111367301..111367340,+p1@Trim6
Mm9::chr7:111367341..111367363,+p2@Trim6
Mm9::chr7:111367918..111367924,+p3@Trim6
Mm9::chr7:147129777..147129814,+p2@Utf1
Mm9::chr7:149674739..149674755,+p21@Lsp1
Mm9::chr7:3169062..3169081,-p2@AU018091
Mm9::chr7:3169094..3169113,-p1@AU018091
Mm9::chr7:31826558..31826583,-p13@Fxyd5
Mm9::chr7:3217833..3217839,+p@chr7:3217833..3217839
+
Mm9::chr7:52411235..52411242,+p10@Pih1d1
Mm9::chr7:92689753..92689757,-p@chr7:92689753..92689757
-
Mm9::chr8:108103755..108103764,-p@chr8:108103755..108103764
-
Mm9::chr8:28334256..28334270,-p@chr8:28334256..28334270
-
Mm9::chr8:28338006..28338016,-p@chr8:28338006..28338016
-
Mm9::chr8:44265871..44265878,+p2@Triml2
Mm9::chr8:44392310..44392319,-p4@Zfp42
Mm9::chr8:44392345..44392363,-p1@Zfp42
Mm9::chr8:44392374..44392389,-p2@Zfp42
Mm9::chr8:44392396..44392401,-p5@Zfp42
Mm9::chr8:44392404..44392412,-p3@Zfp42
Mm9::chr8:59356034..59356036,+p@chr8:59356034..59356036
+
Mm9::chr8:77540128..77540145,+p2@Hmgxb4
Mm9::chr8:77540157..77540170,+p3@Hmgxb4
Mm9::chr8:83383135..83383151,-p@chr8:83383135..83383151
-
Mm9::chr8:83383158..83383168,-p@chr8:83383158..83383168
-
Mm9::chr9:110431691..110431708,+p@chr9:110431691..110431708
+
Mm9::chr9:114472360..114472371,-p@chr9:114472360..114472371
-
Mm9::chr9:114472387..114472401,-p@chr9:114472387..114472401
-
Mm9::chr9:114473433..114473452,-p1@Trim71
Mm9::chr9:118387933..118387942,+p4@Eomes
Mm9::chr9:122510273..122510281,+p@chr9:122510273..122510281
+
Mm9::chr9:14419833..14419845,-p9@Amotl1
Mm9::chr9:28751956..28751960,+p@chr9:28751956..28751960
+
Mm9::chr9:59378043..59378047,-p@chr9:59378043..59378047
-
Mm9::chr9:84132912..84132916,+p@chr9:84132912..84132916
+
Mm9::chrX:108649934..108649950,-p9@Rps6ka6
Mm9::chrX:108649994..108649997,-p16@Rps6ka6
Mm9::chrX:132673578..132673592,+p1@Bex4
Mm9::chrX:132804797..132804808,+p4@Ngfrap1
Mm9::chrX:132804817..132804822,+p5@Ngfrap1
Mm9::chrX:132804841..132804891,+p1@Ngfrap1
Mm9::chrX:135868376..135868409,+p1@Trap1a
Mm9::chrX:135868788..135868795,+p@chrX:135868788..135868795
+
Mm9::chrX:136406154..136406169,-p1@Morc4
Mm9::chrX:35180221..35180224,+p1@Rhox6
Mm9::chrX:76916773..76916777,-p4@Mageb16
Mm9::chrX:98717612..98717643,+p@chrX:98717612..98717643
+


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:0003676nucleic acid binding4.44957308349173e-05
GO:0005634nucleus0.000585733164689278
GO:0010468regulation of gene expression0.000585733164689278
GO:0003677DNA binding0.000713198998836666
GO:0045449regulation of transcription0.000713198998836666
GO:0019222regulation of metabolic process0.000713198998836666
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.000713198998836666
GO:0006350transcription0.000730661736320124
GO:0006355regulation of transcription, DNA-dependent0.00113756538188378
GO:0006351transcription, DNA-dependent0.00113756538188378
GO:0032774RNA biosynthetic process0.00113756538188378
GO:0031323regulation of cellular metabolic process0.00113756538188378
GO:0010467gene expression0.00113756538188378
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.00113756538188378
GO:0050789regulation of biological process0.00113756538188378
GO:0016070RNA metabolic process0.00186772743267879
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.00210976937193339
GO:0050794regulation of cellular process0.00341671059840876
GO:0009893positive regulation of metabolic process0.00403940051718169
GO:0045893positive regulation of transcription, DNA-dependent0.00417790604203939
GO:0006357regulation of transcription from RNA polymerase II promoter0.00426766819051188
GO:0005654nucleoplasm0.00426766819051188
GO:0065007biological regulation0.00483145449891655
GO:0005667transcription factor complex0.00625950687609102
GO:0006366transcription from RNA polymerase II promoter0.00632245872577615
GO:0045941positive regulation of transcription0.00717723439691669
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.00760975223519582
GO:0048518positive regulation of biological process0.00788267700341057
GO:0031981nuclear lumen0.00915414178379858
GO:0043283biopolymer metabolic process0.00915414178379858
GO:0045892negative regulation of transcription, DNA-dependent0.0119058234293405
GO:0044451nucleoplasm part0.0145622357527369
GO:0048522positive regulation of cellular process0.0145622357527369
GO:0031325positive regulation of cellular metabolic process0.0145622357527369
GO:0043233organelle lumen0.0149466328266534
GO:0031974membrane-enclosed lumen0.0149466328266534
GO:0044428nuclear part0.0167806400002146
GO:0016481negative regulation of transcription0.0225479783639174
GO:0003700transcription factor activity0.0225479783639174
GO:0032444activin responsive factor complex0.0225479783639174
GO:0031690adrenergic receptor binding0.0225479783639174
GO:0031699beta-3 adrenergic receptor binding0.0225479783639174
GO:0008270zinc ion binding0.0225479783639174
GO:0005515protein binding0.0243541225697633
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.025557700194825
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0371090046752828
GO:0040029regulation of gene expression, epigenetic0.0377659853919009
GO:0031324negative regulation of cellular metabolic process0.0377659853919009
GO:0035054embryonic heart tube anterior/posterior pattern formation0.0377659853919009
GO:0031503protein complex localization0.0377659853919009
GO:0005069transmembrane receptor protein tyrosine kinase docking protein activity0.0377659853919009
GO:0016564transcription repressor activity0.0420489437280448
GO:0007498mesoderm development0.0448731476142515
GO:0009892negative regulation of metabolic process0.0457083826241915
GO:0008020G-protein coupled photoreceptor activity0.0457083826241915
GO:0002021response to dietary excess0.0457083826241915
GO:0005123death receptor binding0.0457083826241915
GO:0044246regulation of multicellular organismal metabolic process0.0457083826241915
GO:0002025norepinephrine-epinephrine vasodilation involved in regulation of systemic arterial blood pressure0.0457083826241915
GO:0044253positive regulation of multicellular organismal metabolic process0.0457083826241915
GO:0047631ADP-ribose diphosphatase activity0.0457083826241915
GO:0002024diet induced thermogenesis0.0457083826241915
GO:0004939beta-adrenergic receptor activity0.0457083826241915
GO:0007507heart development0.0457083826241915



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>

Cell Type
Ontology termp-valuen
extraembryonic cell1.17e-383
trophoblast cell1.17e-383

Uber Anatomy
Ontology termp-valuen
blastocyst1.17e-383
blastula1.17e-383
cleaving embryo1.17e-383
extraembryonic membrane1.58e-373
extraembryonic structure1.58e-373
membranous layer1.58e-373
placenta1.02e-252
chorion1.02e-252
allantois1.02e-252
amnion1.55e-131
embryonic uterus2.08e-134
uterus2.08e-134
internal female genitalia6.27e-115
female reproductive organ3.51e-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)
MA0003.11.01421
MA0004.10.624993
MA0006.10.0886326
MA0007.10.267285
MA0009.10.364014
MA0014.10.0494502
MA0017.10.543873
MA0019.10.275916
MA0024.10.125693
MA0025.10.128103
MA0027.11.30705
MA0028.11.12253
MA0029.10.268409
MA0030.10.0275475
MA0031.10.0210602
MA0038.10.595575
MA0040.10.383817
MA0041.11.47171
MA0042.11.10711
MA0043.10.247238
MA0046.10.0507889
MA0048.10.0187524
MA0050.10.0913171
MA0051.10.0583544
MA0052.10.176139
MA0055.10.000238855
MA0056.10
MA0057.12.70583
MA0058.10.366763
MA0059.11.15332
MA0060.10.49443
MA0061.10.733429
MA0063.10
MA0066.10.218957
MA0067.10.187785
MA0068.12.19125
MA0069.10.176429
MA0070.10.168239
MA0071.10.423069
MA0072.11.02279
MA0073.17.60172
MA0074.10.163089
MA0076.11.49067
MA0077.10.0362662
MA0078.10.317924
MA0081.10.373378
MA0083.10.0701668
MA0084.10.416042
MA0087.10.204791
MA0088.11.00707
MA0089.10
MA0090.10.644415
MA0091.10.0295635
MA0092.10.22067
MA0093.10.645118
MA0095.10
MA0098.10
MA0100.10.00770869
MA0101.10.61047
MA0103.10.77395
MA0105.12.15997
MA0106.10.53309
MA0107.10.911047
MA0108.20.314829
MA0109.10
MA0111.10.379537
MA0113.10.277461
MA0114.10.346363
MA0115.10.250075
MA0116.10.0277682
MA0117.10.0604493
MA0119.10.0800145
MA0122.10.511214
MA0124.10.157856
MA0125.10.382284
MA0130.10
MA0131.11.0146
MA0132.10
MA0133.10
MA0135.10.285322
MA0136.10.978762
MA0139.10.00443945
MA0140.10.407375
MA0141.10.424976
MA0142.11.7996
MA0143.10.309627
MA0144.11.94541
MA0145.10.152374
MA0146.13.01358
MA0147.10.552636
MA0148.10.0308656
MA0149.10.0858082
MA0062.21.46415
MA0035.20.153295
MA0039.28.12995
MA0138.22.59486
MA0002.20.235082
MA0137.20.898605
MA0104.20.503015
MA0047.20.0530697
MA0112.20.152349
MA0065.22.41216
MA0150.10.396645
MA0151.10
MA0152.10.0531263
MA0153.10.303541
MA0154.10.335054
MA0155.14.19069
MA0156.11.24252
MA0157.10.0670709
MA0158.10
MA0159.11.13414
MA0160.10.524584
MA0161.10
MA0162.10.213085
MA0163.11.04062
MA0164.10.193495
MA0080.20.918276
MA0018.20.209088
MA0099.20.429033
MA0079.26.35051
MA0102.20.457993
MA0258.10.0612164
MA0259.10.608943
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:97&oldid=3072096"