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|ontology_enrichment_uberon=UBERON:0000007!1.66e-54!8;UBERON:0003296!1.66e-54!8;UBERON:0010133!1.66e-54!8;UBERON:0001894!8.43e-44!10;UBERON:0006222!8.43e-44!10;UBERON:0002780!8.52e-12!39;UBERON:0001890!8.52e-12!39;UBERON:0006240!8.52e-12!39;UBERON:0003080!1.62e-11!40;UBERON:0002616!4.29e-10!46;UBERON:0000955!6.83e-10!47;UBERON:0006238!6.83e-10!47;UBERON:0003056!1.64e-09!49;UBERON:0001049!5.37e-09!52;UBERON:0005068!5.37e-09!52;UBERON:0006241!5.37e-09!52;UBERON:0007135!5.37e-09!52;UBERON:0000073!1.10e-08!54;UBERON:0002368!7.20e-08!60;UBERON:0002346!2.08e-07!64;UBERON:0003075!2.08e-07!64;UBERON:0007284!2.08e-07!64;UBERON:0002530!2.65e-07!65
|ontology_enrichment_uberon=UBERON:0000007!1.66e-54!8;UBERON:0003296!1.66e-54!8;UBERON:0010133!1.66e-54!8;UBERON:0001894!8.43e-44!10;UBERON:0006222!8.43e-44!10;UBERON:0002780!8.52e-12!39;UBERON:0001890!8.52e-12!39;UBERON:0006240!8.52e-12!39;UBERON:0003080!1.62e-11!40;UBERON:0002616!4.29e-10!46;UBERON:0000955!6.83e-10!47;UBERON:0006238!6.83e-10!47;UBERON:0003056!1.64e-09!49;UBERON:0001049!5.37e-09!52;UBERON:0005068!5.37e-09!52;UBERON:0006241!5.37e-09!52;UBERON:0007135!5.37e-09!52;UBERON:0000073!1.10e-08!54;UBERON:0002368!7.20e-08!60;UBERON:0002346!2.08e-07!64;UBERON:0003075!2.08e-07!64;UBERON:0007284!2.08e-07!64;UBERON:0002530!2.65e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.457576,0.111156,0.133309,0.178048,0.531164,0.551286,0.254787,0.308279,0.32877,0.323789,0.221763,0.24561,0.564861,0.264234,0.271754,0,0.42315,0.876905,0.277053,0.664555,1.19315,0.153134,0.263535,0.070175,0.138033,0.285776,0.486875,0.202945,0.646362,0.353285,0.192916,0.512187,0.23475,0.221918,0.574198,0.16434,0.0618293,0.242872,0.052341,0.0410186,0.0689912,0.196576,0.411267,0.578047,0.0084282,0.508392,0.355451,0.214351,0.499056,1.08833,1.05136,0.307229,0.333099,0.641205,0.657376,0.743028,0.330626,0.664869,0.457729,0.268198,0.494318,0.845221,0.637374,0.398468,0.278491,1.10617,0.785371,1.12243,0.490165,0.979213,0.386078,0.58423,0.00424418,0.6886,0.0208952,0.401794,0.088252,0.346003,1.20472,0.113666,0.323638,0.438213,0.842599,0.861077,0.582029,0.0152094,0.00521875,1.63317,0.944781,1.2816,0.851763,0.586575,0.523661,0.0737837,0.0506699,0.380698,0.555715,0.526183,0.936209,0.761297,0.061865,0.511936,0.625103,0.408622,0.407717,0.196264,0.459578,0.211422,0.116526,0.361235,0.145352,0.626748,0.366686,0.225582,0.858505,0.240644,0.0705519,1.02142,0.424276,0.217483,0.693645,0.380657,0.287218,0.913128,0.910454,0.482363,1.33126,0.517583,0.783932,0.260855,1.48104,0.5148,0.75595,0.767443,0.879201,0.149536,0.471259,0.197578,0.832159,1.64606,1.25025,0.789841,0.804509,0.521565,0.402166,0.196898,0.358053,1.60668,0.475114,0.0717633,0.360841,0.0028093,0.642658,0.174823,0.27974,0.718834,0.30804,1.01394,0.453591,0.155206,0.841238,1.42171,0.482758,0.869484,0.39934,0.752521,0.220881,1.26906,0.0148726
|tfbs_overrepresentation_for_novel_motifs=0.457576,0.111156,0.133309,0.178048,0.531164,0.551286,0.254787,0.308279,0.32877,0.323789,0.221763,0.24561,0.564861,0.264234,0.271754,0,0.42315,0.876905,0.277053,0.664555,1.19315,0.153134,0.263535,0.070175,0.138033,0.285776,0.486875,0.202945,0.646362,0.353285,0.192916,0.512187,0.23475,0.221918,0.574198,0.16434,0.0618293,0.242872,0.052341,0.0410186,0.0689912,0.196576,0.411267,0.578047,0.0084282,0.508392,0.355451,0.214351,0.499056,1.08833,1.05136,0.307229,0.333099,0.641205,0.657376,0.743028,0.330626,0.664869,0.457729,0.268198,0.494318,0.845221,0.637374,0.398468,0.278491,1.10617,0.785371,1.12243,0.490165,0.979213,0.386078,0.58423,0.00424418,0.6886,0.0208952,0.401794,0.088252,0.346003,1.20472,0.113666,0.323638,0.438213,0.842599,0.861077,0.582029,0.0152094,0.00521875,1.63317,0.944781,1.2816,0.851763,0.586575,0.523661,0.0737837,0.0506699,0.380698,0.555715,0.526183,0.936209,0.761297,0.061865,0.511936,0.625103,0.408622,0.407717,0.196264,0.459578,0.211422,0.116526,0.361235,0.145352,0.626748,0.366686,0.225582,0.858505,0.240644,0.0705519,1.02142,0.424276,0.217483,0.693645,0.380657,0.287218,0.913128,0.910454,0.482363,1.33126,0.517583,0.783932,0.260855,1.48104,0.5148,0.75595,0.767443,0.879201,0.149536,0.471259,0.197578,0.832159,1.64606,1.25025,0.789841,0.804509,0.521565,0.402166,0.196898,0.358053,1.60668,0.475114,0.0717633,0.360841,0.0028093,0.642658,0.174823,0.27974,0.718834,0.30804,1.01394,0.453591,0.155206,0.841238,1.42171,0.482758,0.869484,0.39934,0.752521,0.220881,1.26906,0.0148726
|tfbs_overrepresentation_jaspar=MA0003.1;0.00316887,MA0004.1;0.527785,MA0006.1;0.0769247,MA0007.1;2.94322,MA0009.1;0.535932,MA0014.1;0.0140786,MA0017.1;0.6294,MA0019.1;0.982191,MA0024.1;1.24244,MA0025.1;0.751694,MA0027.1;2.14278,MA0028.1;0.0821841,MA0029.1;0.477444,MA0030.1;0.483253,MA0031.1;0.451927,MA0038.1;0.285714,MA0040.1;0.547233,MA0041.1;0.129017,MA0042.1;0.121046,MA0043.1;0.624178,MA0046.1;1.39477,MA0048.1;0.295216,MA0050.1;0.205672,MA0051.1;0.2928,MA0052.1;0.554531,MA0055.1;0.19426,MA0056.1;0,MA0057.1;0.126887,MA0058.1;0.373672,MA0059.1;0.124358,MA0060.1;0.0417645,MA0061.1;0.0537092,MA0063.1;0,MA0066.1;0.759694,MA0067.1;0.857286,MA0068.1;0.0481248,MA0069.1;0.554839,MA0070.1;0.54606,MA0071.1;0.20507,MA0072.1;0.538403,MA0073.1;9.06081e-05,MA0074.1;0.249359,MA0076.1;0.101055,MA0077.1;0.518913,MA0078.1;0.319336,MA0081.1;0.138626,MA0083.1;0.623446,MA0084.1;1.1752,MA0087.1;0.583879,MA0088.1;0.476626,MA0089.1;0,MA0090.1;0.471234,MA0091.1;2.35142,MA0092.1;0.471747,MA0093.1;0.292081,MA0095.1;0,MA0098.1;0,MA0100.1;1.94524,MA0101.1;0.12981,MA0103.1;0.319254,MA0105.1;0.0188009,MA0106.1;0.325663,MA0107.1;0.093115,MA0108.2;0.395878,MA0109.1;0,MA0111.1;0.164756,MA0113.1;1.48395,MA0114.1;0.75813,MA0115.1;0.626759,MA0116.1;0.076822,MA0117.1;0.597086,MA0119.1;1.31557,MA0122.1;0.615314,MA0124.1;0.80652,MA0125.1;0.736412,MA0130.1;0,MA0131.1;0.372683,MA0132.1;0,MA0133.1;0,MA0135.1;2.67377,MA0136.1;0.264624,MA0139.1;0.0308792,MA0140.1;0.240513,MA0141.1;0.348672,MA0142.1;1.11899,MA0143.1;0.31603,MA0144.1;0.440414,MA0145.1;0.76606,MA0146.1;0.0528143,MA0147.1;0.0593437,MA0148.1;0.189643,MA0149.1;0.133214,MA0062.2;0.0201154,MA0035.2;0.244063,MA0039.2;0.0119437,MA0138.2;0.959075,MA0002.2;0.306205,MA0137.2;0.105829,MA0104.2;0.0366484,MA0047.2;0.285109,MA0112.2;0.522431,MA0065.2;0.327992,MA0150.1;0.168102,MA0151.1;0,MA0152.1;0.285194,MA0153.1;0.67335,MA0154.1;0.141864,MA0155.1;1.18425,MA0156.1;0.100572,MA0157.1;0.411541,MA0158.1;0,MA0159.1;0.851047,MA0160.1;0.191754,MA0161.1;0,MA0162.1;0.0108637,MA0163.1;0.203681,MA0164.1;0.264905,MA0080.2;0.31151,MA0018.2;0.749098,MA0099.2;0.947425,MA0079.2;0.00302608,MA0102.2;1.22663,MA0258.1;1.09353,MA0259.1;0.0546944,MA0442.1;0
}}
}}

Revision as of 11:41, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:106161584..106161590,+p@chr11:106161584..106161590
+
Mm9::chr11:106161724..106161753,+p@chr11:106161724..106161753
+
Mm9::chr11:106161754..106161757,-p@chr11:106161754..106161757
-
Mm9::chr11:106162417..106162448,+p@chr11:106162417..106162448
+
Mm9::chr11:106162437..106162476,-p@chr11:106162437..106162476
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Mm9::chr11:106162783..106162832,-p@chr11:106162783..106162832
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Mm9::chr12:3960439..3960482,-p@chr12:3960439..3960482
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Mm9::chr1:74116782..74116807,-p@chr1:74116782..74116807
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Mm9::chr5:141592278..141592283,+p@chr5:141592278..141592283
+
Mm9::chr5:152202814..152202825,+p@chr5:152202814..152202825
+
Mm9::chr6:126485282..126485295,-p5@Kcna5
Mm9::chr6:55326278..55326345,+p1@Ghrhr
Mm9::chr6:55326368..55326373,+p2@Ghrhr
Mm9::chr7:109017720..109017744,-p13@Folr1
Mm9::chr8:10695076..10695087,-p@chr8:10695076..10695087
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Mm9::chr9:36592402..36592409,-p@chr9:36592402..36592409
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Mm9::chrX:46846282..46846291,+p@chrX:46846282..46846291
+
Mm9::chrX:46846293..46846316,+p@chrX:46846293..46846316
+
Mm9::chrX:46846319..46846351,+p@chrX:46846319..46846351
+


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:0033143regulation of steroid hormone receptor signaling pathway2.48515736428866e-05
GO:0030518steroid hormone receptor signaling pathway0.000322834473186431
GO:0030522intracellular receptor-mediated signaling pathway0.000422013907469306
GO:0040018positive regulation of multicellular organism growth0.000477728983046277
GO:0045927positive regulation of growth0.000537546397969296
GO:0040014regulation of multicellular organism growth0.00182418535003343
GO:0035264multicellular organism growth0.00215647132584364
GO:0046655folic acid metabolic process0.00592923897665471
GO:0006810transport0.00592923897665471
GO:0051234establishment of localization0.00592923897665471
GO:0040008regulation of growth0.00592923897665471
GO:0051179localization0.00592923897665471
GO:0019870potassium channel inhibitor activity0.00592923897665471
GO:0016520growth hormone-releasing hormone receptor activity0.00592923897665471
GO:0015459potassium channel regulator activity0.00592923897665471
GO:0005131growth hormone receptor binding0.00592923897665471
GO:0060133somatotropin secreting cell development0.00592923897665471
GO:0060126somatotropin secreting cell differentiation0.00657318122251631
GO:0004999vasoactive intestinal polypeptide receptor activity0.00657318122251631
GO:0060124positive regulation of growth hormone secretion0.00657318122251631
GO:0043267negative regulation of potassium ion transport0.00657318122251631
GO:0006620posttranslational protein targeting to membrane0.00657318122251631
GO:0043567regulation of insulin-like growth factor receptor signaling pathway0.00657318122251631
GO:0048878chemical homeostasis0.00731979991158991
GO:0043271negative regulation of ion transport0.00746522188833836
GO:0008517folic acid transporter activity0.00746522188833836
GO:0060123regulation of growth hormone secretion0.00746522188833836
GO:0043266regulation of potassium ion transport0.00868725972802251
GO:0046887positive regulation of hormone secretion0.00868725972802251
GO:0046903secretion0.00889093507082687
GO:0030252growth hormone secretion0.00889093507082687
GO:0021984adenohypophysis development0.00889093507082687
GO:0008200ion channel inhibitor activity0.00889093507082687
GO:0016248channel inhibitor activity0.00889093507082687
GO:0008340determination of adult life span0.00953093980484191
GO:0030104water homeostasis0.00953093980484191
GO:0051183vitamin transporter activity0.00953093980484191
GO:0051184cofactor transporter activity0.010333063439317
GO:0018987osmoregulation0.010333063439317
GO:0042592homeostatic process0.0105840667053847
GO:0009966regulation of signal transduction0.0107720578324596
GO:0048009insulin-like growth factor receptor signaling pathway0.0107934737471018
GO:0051047positive regulation of secretion0.0111923120760308
GO:0010259multicellular organismal aging0.0111923120760308
GO:0005542folic acid binding0.0111923120760308
GO:0006760folic acid and derivative metabolic process0.0120429111558723
GO:0043269regulation of ion transport0.0128571384581254
GO:0042558pteridine and derivative metabolic process0.013637267237792
GO:0016247channel regulator activity0.0148072675954601
GO:0007595lactation0.0148072675954601
GO:0015457auxiliary transport protein activity0.0148072675954601
GO:0051051negative regulation of transport0.016777432247842
GO:0021983pituitary gland development0.016777432247842
GO:0001633secretin-like receptor activity0.016777432247842
GO:0005886plasma membrane0.0170756255971267
GO:0045047protein targeting to ER0.0170756255971267
GO:0046883regulation of hormone secretion0.0173531113338805
GO:0021536diencephalon development0.0173531113338805
GO:0005615extracellular space0.0179942877363719
GO:0030879mammary gland development0.0184491084075961
GO:0044421extracellular region part0.0206153037467956
GO:0006612protein targeting to membrane0.0210171090287721
GO:0015758glucose transport0.0210171090287721
GO:0008645hexose transport0.0210171090287721
GO:0030072peptide hormone secretion0.0210171090287721
GO:0015749monosaccharide transport0.0210171090287721
GO:0007568aging0.0210171090287721
GO:0002790peptide secretion0.0213231929639771
GO:0065008regulation of biological quality0.0213231929639771
GO:0005802trans-Golgi network0.0229825851491478
GO:0007189G-protein signaling, adenylate cyclase activating pathway0.0247770458774296
GO:0030141secretory granule0.0261276503101051
GO:0015833peptide transport0.0261276503101051
GO:0005126hematopoietin/interferon-class (D200-domain) cytokine receptor binding0.0261276503101051
GO:0006767water-soluble vitamin metabolic process0.0261276503101051
GO:0046879hormone secretion0.0271016582580552
GO:0042391regulation of membrane potential0.0273998672993993
GO:0035270endocrine system development0.0308974249675608
GO:0051046regulation of secretion0.0330376439919835
GO:0048518positive regulation of biological process0.0330477049552734
GO:0008076voltage-gated potassium channel complex0.0330477049552734
GO:0006752group transfer coenzyme metabolic process0.0330477049552734
GO:0007188G-protein signaling, coupled to cAMP nucleotide second messenger0.0332514267076892
GO:0007187G-protein signaling, coupled to cyclic nucleotide second messenger0.0346391528393976
GO:0019933cAMP-mediated signaling0.0354062112259137
GO:0008643carbohydrate transport0.0357394729419819
GO:0006766vitamin metabolic process0.0357394729419819
GO:0019935cyclic-nucleotide-mediated signaling0.0359002829273947
GO:0046483heterocycle metabolic process0.0371780650177166
GO:0050878regulation of body fluid levels0.0386745083598179
GO:0048609reproductive process in a multicellular organism0.0386745083598179
GO:0032504multicellular organism reproduction0.0386745083598179
GO:0048469cell maturation0.0392875422895539
GO:0048732gland development0.0392875422895539
GO:0007242intracellular signaling cascade0.0392875422895539
GO:0042445hormone metabolic process0.0420259705949108
GO:0050794regulation of cellular process0.0420259705949108
GO:0005249voltage-gated potassium channel activity0.0424011550696585
GO:0051049regulation of transport0.0424750640880743
GO:0003001generation of a signal involved in cell-cell signaling0.0435413653632095
GO:0021700developmental maturation0.0450775106007803
GO:0030900forebrain development0.0490137829712046



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
pituitary gland1.66e-548
gland of diencephalon1.66e-548
neuroendocrine gland1.66e-548
diencephalon8.43e-4410
future diencephalon8.43e-4410
regional part of forebrain8.52e-1239
forebrain8.52e-1239
future forebrain8.52e-1239
anterior neural tube1.62e-1140
regional part of brain4.29e-1046
brain6.83e-1047
future brain6.83e-1047
pre-chordal neural plate1.64e-0949
neural tube5.37e-0952
neural rod5.37e-0952
future spinal cord5.37e-0952
neural keel5.37e-0952
regional part of nervous system1.10e-0854
endocrine gland7.20e-0860
neurectoderm2.08e-0764
neural plate2.08e-0764
presumptive neural plate2.08e-0764
gland2.65e-0765


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)
MA0003.10.00316887
MA0004.10.527785
MA0006.10.0769247
MA0007.12.94322
MA0009.10.535932
MA0014.10.0140786
MA0017.10.6294
MA0019.10.982191
MA0024.11.24244
MA0025.10.751694
MA0027.12.14278
MA0028.10.0821841
MA0029.10.477444
MA0030.10.483253
MA0031.10.451927
MA0038.10.285714
MA0040.10.547233
MA0041.10.129017
MA0042.10.121046
MA0043.10.624178
MA0046.11.39477
MA0048.10.295216
MA0050.10.205672
MA0051.10.2928
MA0052.10.554531
MA0055.10.19426
MA0056.10
MA0057.10.126887
MA0058.10.373672
MA0059.10.124358
MA0060.10.0417645
MA0061.10.0537092
MA0063.10
MA0066.10.759694
MA0067.10.857286
MA0068.10.0481248
MA0069.10.554839
MA0070.10.54606
MA0071.10.20507
MA0072.10.538403
MA0073.19.06081e-05
MA0074.10.249359
MA0076.10.101055
MA0077.10.518913
MA0078.10.319336
MA0081.10.138626
MA0083.10.623446
MA0084.11.1752
MA0087.10.583879
MA0088.10.476626
MA0089.10
MA0090.10.471234
MA0091.12.35142
MA0092.10.471747
MA0093.10.292081
MA0095.10
MA0098.10
MA0100.11.94524
MA0101.10.12981
MA0103.10.319254
MA0105.10.0188009
MA0106.10.325663
MA0107.10.093115
MA0108.20.395878
MA0109.10
MA0111.10.164756
MA0113.11.48395
MA0114.10.75813
MA0115.10.626759
MA0116.10.076822
MA0117.10.597086
MA0119.11.31557
MA0122.10.615314
MA0124.10.80652
MA0125.10.736412
MA0130.10
MA0131.10.372683
MA0132.10
MA0133.10
MA0135.12.67377
MA0136.10.264624
MA0139.10.0308792
MA0140.10.240513
MA0141.10.348672
MA0142.11.11899
MA0143.10.31603
MA0144.10.440414
MA0145.10.76606
MA0146.10.0528143
MA0147.10.0593437
MA0148.10.189643
MA0149.10.133214
MA0062.20.0201154
MA0035.20.244063
MA0039.20.0119437
MA0138.20.959075
MA0002.20.306205
MA0137.20.105829
MA0104.20.0366484
MA0047.20.285109
MA0112.20.522431
MA0065.20.327992
MA0150.10.168102
MA0151.10
MA0152.10.285194
MA0153.10.67335
MA0154.10.141864
MA0155.11.18425
MA0156.10.100572
MA0157.10.411541
MA0158.10
MA0159.10.851047
MA0160.10.191754
MA0161.10
MA0162.10.0108637
MA0163.10.203681
MA0164.10.264905
MA0080.20.31151
MA0018.20.749098
MA0099.20.947425
MA0079.20.00302608
MA0102.21.22663
MA0258.11.09353
MA0259.10.0546944
MA0442.10
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