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Coexpression cluster:C127: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0001764!9.37e-99!1;UBERON:0001825!9.37e-99!1
|ontology_enrichment_uberon=UBERON:0001764!9.37e-99!1;UBERON:0001825!9.37e-99!1
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,0.783888,0.995118,0.984622,0.906393,0.63907,0.999924,0.744342,1,0.977084,0.84468,0.986447,0.930065,0.737294,0.104151,0.989264,0.863862,0.998645,0.933045,0.937551,0.989372,0.316903,0.664112,0.374093,0.959284,0.998654,0.995345,0.841851,0.754634,0.924411,0.812333,0.999999,0.998521,0.897466,0.947528,0.996831,0.990534,0.329863,0.907493,0.772706,0.345431,0.999801,0.999971,0.45665,0.723653,0.910417,0.800804,0.712908,0.6778,0.447652,0.803439,0.973286,0.831284,0.998125,0.357238,0.972502,0.998666,0.93651,0.990019,0.319281,0.999996,0.938385,0.898911,0.89491,0.947747,0.887885,0.999222,0.96912,0.991917,0.356689,0.817844,0.986693,0.5505,0.999989,0.999998,0.915817,0.989751,0.970756,0.414577,0.995533,0.687495,0.949661,0.994396,0.883223,0.644518,0.995866,0.665014,0.992666,0.523156,0.835649,0.796499,0.636622,0.482786,0.923317,0.484038,0.663666,0.966112,0.628956,0.522584,0.931822,0.885092,0.999564,0.983549,0.99102,0.989784,0.73998,0.759302,0.94251,0.99369,0.782435,0.807046,4.56063e-05,0.999479,1,0.805197,0.864793,0.829865,0.334853,0.738802,0.645115,0.952874,0.955192,0.175651,0.219598,0.39189,0.67044,0.797233,0.87157,0.709063,0.983722,0.99841,0.996459,0.975949,0.921082,0.945997,0.990754,0.998669,0.980298,0.714084,0.373553,0.994467,0.0373491,0.494816,0.703807,0.931577,0.937214,0.66593,0.15877,0.996806,0.907687,0.0365304,0.40548,0.999975,0.997706,0.942896,0.997103,0.994841,0.890015,0.999612,0.999899,0.999982,0.250015,0.999404,0.960162,0.617379,0.998819,0.998915,0.0515987,0.997293,0.973299,0.690582,0.996883,0.985462,0.914566,0.998307,0.952116,0.976564,0.978017,0.97639,0.991583,0.978436,0.951998,0.876912,0.718321,0.999693,0.996169,0.996406,0.859879,0.996486,0.813444,0.993239,1,0.851902,0.914272,0.999979,0.982256,0.998339,0.999976,0.971552,0.999986,0.99961,0.736287,0.969778,0.628462,0.972341,0.999709,0.911208,0.874825,0.11953,0.988898,0.948942,0.999998,0.996268,1,0.999998,0.0784519,0.999985,0.995382,0.997502,0.999939,0.951962,0.999999,0.28596,0.999992,0.999989,0.999999,0.907673,0.998191,0.751336,0.997637,0.887438,0.996339,0.717102,0.999881,0.181849,0.926239,0.0219351,0.514823,0.692744,0.916183,0.085537,0.179628,0.717642,0.314513,0.846136,0.843823,0.238311,0.778307,0.999959,0.999889,0.985508,0.982017,0.649249,0.993447,0.241086,0.999922,0.999205,0.999688,0.997833,0.537151,0.948835,0.552585,0.994468,0.989476,0.99979,0.90435,0.841436,0.622251,0.829458,1,0.856508,0.706272,0.914947,0.703956,0.999996,0.682254,0.940152,0.922575,0.986397,0.98575,0.99495,0.985737,0.840315,0.713808,0.388812,0.739611,0.930493,0.540969,0.980544,0.942173,0.983367,0.999974,0.975967,0.162257,0.99832,0.647604,0.9875,0.998743,0.968458,0.615156,0.289945,0.999037,0.654918,0.998347,0.388811,0.999706,0.888247,0.666278,0.999383,0.998979,0.924117,0.887486,0.697487,0.999693,0.998153,0.979946,0.997214,0.943137,0.261407,0.869611,0.763875,0.993461,0.485754,0.810391,0.993384,0.995589,0.786341,0.999507,0.178023,0.99993,0.843891,0.891448,0.977892,0.99763,0.957746,0.800487,0.988751,0.543922,0.856955,0.86495,0.28541,0.454593,0.970064,0.91949,0.725051,0.854266,0.646855,0.848751,0.927324,0.926748,0.788641,0.884203,0.412642,0.439322,0.995079,0.972819,0.826631,0.904078,0.82456,0.960991,0.996781,0.977562,0.753375,0.739075,0.94833,0.78931,0.837781,0.589743,0.454787,0.956503,0.83775,0.922267,0.989713,0.920645,0.916002,0.403322,0.838485,0.856033,0.295204,0.495024,0.608219,0.920833,0.965794,0.998068,0.863913,0.841975,0.830631,0.919514,0.888221,0.978752,0.95197,0.995758,0.534745,0.0852123,0.992424,0.904975,0.165997,0.988748,0.960651,0.824093,0.882419,0.868465,0.941752,0.998315,0.82423,0.962699,0.823014,0.645865,0.809715,0.867203,0.840727,0.98651,0.0675218,0.939643,0.761506,0.99389,0.457306,0.652278,0.993829,0.312366,0.919672,0.520617,0.952985,0.912276,0.977686,0.950002,0.972036,0.888689,0.998889,0.808512,0.787691,0.967668,0.834663,0.993131,0.692643,0.522308,0.904042,0.930631,0.994461,0.989737,0.573022,0.993411,0.775231,0.730579,0.7322,0.982648,0.733948,0.858302,0.925426,0.0302643,0.972643,0.965878,0.966136,0.194459,0.768618,0.981404,0.533452,0.602258,0.729452,0.955042,0.592684,0.832097,0.886323,0.886563,0.971896,0.355843,0.836094,0.816328,0.827881,0.908043,0.195799,0.965925,0.034136,0.999238,0.999241,0.846553,0.984838,0.478512,0.666375,0.968801,0.305321,0.56955,0.784762,0.999665,0.791625,0.912874,0.847245,0.947929,0.918832,0.812024,0.98819,0.359252,0.996788,0.97847,0.926254,0.688581,0.776297,0.906014,0.948653,0.992366,0.846974,0.907613,0.839239,0.831772,0.846642,0.919212,0.851382,0.985341,0.99256,0.113787,0.961197,0.960022,0.860583,0.803743,0.735719,0.833615,0.801714,0.28864,0.803153,0.611054,0.958706,0.778183
|tfbs_overrepresentation_for_novel_motifs=0.0228137,0.108837,0.0416129,0.0799188,0.772103,0.249402,0.0829232,0.265423,0.253504,0.0971293,0.296025,0.589004,0.0272105,0.26364,0.761997,0.0970981,0.017283,3.59911,0.0940485,0.485793,0.0416557,0.19635,0.137291,1.1045,0.145691,0.932352,0.418068,0.700117,0.0710328,0.0972868,0.082768,0.749931,2.05531,0.89293,0.152033,0.0616421,0.00287033,0.754362,1.11694,0.240158,0.216608,0.0669221,0.775949,1.34262,0.0316109,0.411182,0.0838132,0.167278,0.39196,0.181158,0.164932,0.185272,0.171784,0.153901,0.0888192,0.0761338,0.659447,0.205908,0.00617852,0.691154,0.127046,0.295524,0.135011,0.338523,0.736775,0.00987198,0.127995,0.946806,1.4513,0.688378,0.0556914,0.484613,0.0201103,0.08802,0.0378317,0.658634,0.343213,0.308773,1.43553,0.0776562,1.09567,0.336594,0.197863,0.0683671,0.242633,0.0121252,0.167072,0.713524,0.0917602,0.43762,0.524946,0.216505,0.268023,0.38,3.01189e-05,0.877257,1.34463,0.0351621,0.578324,0.848178,0.388733,0.260519,0.136352,0.65382,0.994142,0.00155726,0.18746,0.145937,0.472961,0.00530676,0.788788,0.908059,0.00712009,0.0612046,0.460189,0.505821,0.0664607,0.0396502,0.1343,1.74473,0.287347,0.195435,0.374404,0.551757,0.214342,0.154081,0.430328,0.113855,0.334877,0.190185,0.473667,2.02148,0.1086,0.768652,0.542853,1.63175,1.34271,0.512684,0.484696,0.83488,0.480102,0.435637,1.78026,0.322763,0.263645,0.19096,0.237875,0.689625,0.0639549,0.467092,0.0819656,5.18283e-06,0.0601762,0.289391,0.0853651,0.266401,0.322467,0.295175,0.0439941,0.0272111,0.434074,0.772548,0.434381,0.058132,0.495533,0.732024,0.00657677,0.644804,0.000991117
}}
}}

Revision as of 13:31, 26 November 2012


Full id: C127_maxillary_small_hepatoblastoma_hepatocellular_alveolar_colon_argyrophil



Phase1 CAGE Peaks

Hg19::chr10:111171762..111171773,-p@chr10:111171762..111171773
-
Hg19::chr10:115327155..115327166,+p5@HABP2
Hg19::chr10:115939099..115939117,+p2@TDRD1
Hg19::chr10:115999510..115999521,+p5@VWA2
Hg19::chr10:1895618..1895626,+p@chr10:1895618..1895626
+
Hg19::chr10:72576444..72576454,+p12@SGPL1
Hg19::chr10:72576468..72576497,+p2@SGPL1
Hg19::chr10:72576503..72576516,+p11@SGPL1
Hg19::chr10:72576547..72576568,+p10@SGPL1
Hg19::chr11:36489757..36489777,+p@chr11:36489757..36489777
+
Hg19::chr11:69633471..69633482,+p@chr11:69633471..69633482
+
Hg19::chr11:69633974..69633997,-p1@FGF3
Hg19::chr11:69634335..69634346,-p6@FGF3
Hg19::chr11:69634506..69634517,-p5@FGF3
Hg19::chr11:71939032..71939040,+p23@INPPL1
Hg19::chr11:78177177..78177186,-p@chr11:78177177..78177186
-
Hg19::chr12:130617921..130617932,+p@chr12:130617921..130617932
+
Hg19::chr12:130617944..130617953,+p@chr12:130617944..130617953
+
Hg19::chr12:130822499..130822514,+p5@PIWIL1
Hg19::chr12:130822519..130822529,+p7@PIWIL1
Hg19::chr12:79406759..79406766,+p@chr12:79406759..79406766
+
Hg19::chr12:79611340..79611358,+p1@AB384875
Hg19::chr12:79611372..79611384,+p2@AB384875
Hg19::chr12:92247545..92247559,-p@chr12:92247545..92247559
-
Hg19::chr12:92247594..92247605,-p@chr12:92247594..92247605
-
Hg19::chr12:92247611..92247618,-p@chr12:92247611..92247618
-
Hg19::chr12:92247626..92247635,-p@chr12:92247626..92247635
-
Hg19::chr12:92247725..92247764,+p@chr12:92247725..92247764
+
Hg19::chr13:101081145..101081150,+p@chr13:101081145..101081150
+
Hg19::chr14:106922517..106922528,-p@chr14:106922517..106922528
-
Hg19::chr14:51338763..51338776,+p3@ABHD12B
Hg19::chr14:51338801..51338814,+p2@ABHD12B
Hg19::chr14:51338816..51338857,+p1@ABHD12B
Hg19::chr14:61952109..61952155,+p@chr14:61952109..61952155
+
Hg19::chr14:79331180..79331190,+p@chr14:79331180..79331190
+
Hg19::chr14:79331221..79331232,+p@chr14:79331221..79331232
+
Hg19::chr14:79331250..79331261,+p@chr14:79331250..79331261
+
Hg19::chr14:79331318..79331327,+p@chr14:79331318..79331327
+
Hg19::chr14:79502968..79502972,+p@chr14:79502968..79502972
+
Hg19::chr15:46241272..46241278,+p@chr15:46241272..46241278
+
Hg19::chr15:46282024..46282028,+p@chr15:46282024..46282028
+
Hg19::chr15:46316623..46316627,+p@chr15:46316623..46316627
+
Hg19::chr15:46351173..46351177,+p@chr15:46351173..46351177
+
Hg19::chr15:46499592..46499596,+p@chr15:46499592..46499596
+
Hg19::chr15:46595297..46595301,+p@chr15:46595297..46595301
+
Hg19::chr15:67649625..67649632,+p10@IQCH
Hg19::chr15:67649672..67649692,+p4@IQCH
Hg19::chr16:50539857..50539869,+p@chr16:50539857..50539869
+
Hg19::chr16:50539874..50539887,+p@chr16:50539874..50539887
+
Hg19::chr16:50581680..50581691,+p@chr16:50581680..50581691
+
Hg19::chr16:50581702..50581732,+p@chr16:50581702..50581732
+
Hg19::chr16:50582222..50582230,+p2@NKD1
Hg19::chr16:50582298..50582316,+p1@NKD1
Hg19::chr16:68420720..68420727,-p@chr16:68420720..68420727
-
Hg19::chr17:17529513..17529535,-p@chr17:17529513..17529535
-
Hg19::chr17:17529540..17529545,-p@chr17:17529540..17529545
-
Hg19::chr17:69077405..69077409,+p@chr17:69077405..69077409
+
Hg19::chr17:79974342..79974365,+p@chr17:79974342..79974365
+
Hg19::chr17:908734..908738,+p3@BC129815
Hg19::chr17:908765..908774,+p2@BC129815
Hg19::chr18:37322033..37322043,+p@chr18:37322033..37322043
+
Hg19::chr18:8625916..8625925,+p@chr18:8625916..8625925
+
Hg19::chr19:36222531..36222539,+p@chr19:36222531..36222539
+
Hg19::chr19:46518842..46518860,+p@chr19:46518842..46518860
+
Hg19::chr19:46519977..46519985,-p@chr19:46519977..46519985
-
Hg19::chr19:46580353..46580358,-p1@AK057802
Hg19::chr19:46580361..46580396,-p2@ENST00000366172
p2@uc002pdz.1
Hg19::chr19:46580415..46580420,-p10@ENST00000366172
p10@uc002pdz.1
Hg19::chr19:46580452..46580460,-p9@ENST00000366172
p9@uc002pdz.1
Hg19::chr19:46580826..46580845,-p3@ENST00000366172
p3@uc002pdz.1
Hg19::chr19:46580912..46580923,-p4@ENST00000366172
p4@uc002pdz.1
Hg19::chr1:11000123..11000131,-p@chr1:11000123..11000131
-
Hg19::chr1:172613350..172613353,+p@chr1:172613350..172613353
+
Hg19::chr1:213822723..213822727,-p@chr1:213822723..213822727
-
Hg19::chr1:213822756..213822765,-p@chr1:213822756..213822765
-
Hg19::chr20:33565400..33565413,+p7@MYH7B
Hg19::chr20:36470640..36470649,+p6@CTNNBL1
Hg19::chr20:36470708..36470717,+p10@CTNNBL1
Hg19::chr20:36470727..36470734,+p11@CTNNBL1
Hg19::chr20:5681874..5681885,+p@chr20:5681874..5681885
+
Hg19::chr21:46193671..46193689,-p9@UBE2G2
Hg19::chr21:46194934..46194979,-p17@UBE2G2
Hg19::chr2:175389279..175389282,+p@chr2:175389279..175389282
+
Hg19::chr2:223043326..223043344,-p@chr2:223043326..223043344
-
Hg19::chr2:99909329..99909333,-p@chr2:99909329..99909333
-
Hg19::chr3:11675723..11675735,-p@chr3:11675723..11675735
-
Hg19::chr3:11675748..11675759,-p@chr3:11675748..11675759
-
Hg19::chr3:11675763..11675778,-p@chr3:11675763..11675778
-
Hg19::chr3:129690202..129690210,-p@chr3:129690202..129690210
-
Hg19::chr3:137483141..137483162,+p1@SOX14
Hg19::chr3:193656555..193656579,-p@chr3:193656555..193656579
-
Hg19::chr3:193678383..193678395,+p@chr3:193678383..193678395
+
Hg19::chr3:195943343..195943360,+p3@OSTalpha
Hg19::chr3:52643526..52643537,-p8@PBRM1
Hg19::chr3:86926149..86926150,+p@chr3:86926149..86926150
+
Hg19::chr3:95928627..95928643,-p@chr3:95928627..95928643
-
Hg19::chr3:95928653..95928656,-p@chr3:95928653..95928656
-
Hg19::chr3:95928667..95928672,-p@chr3:95928667..95928672
-
Hg19::chr3:95928676..95928681,-p@chr3:95928676..95928681
-
Hg19::chr3:95928689..95928701,-p@chr3:95928689..95928701
-
Hg19::chr4:16460563..16460585,+p@chr4:16460563..16460585
+
Hg19::chr5:115481500..115481504,+p@chr5:115481500..115481504
+
Hg19::chr5:146939412..146939419,+p2@LOC153469
Hg19::chr5:146939429..146939436,+p3@LOC153469
Hg19::chr5:16737865..16737876,-p@chr5:16737865..16737876
-
Hg19::chr5:175298205..175298209,-p@chr5:175298205..175298209
-
Hg19::chr5:175298256..175298267,-p@chr5:175298256..175298267
-
Hg19::chr6:138428938..138428953,-p8@PERP
Hg19::chr6:138428975..138428985,-p13@PERP
Hg19::chr6:56507200..56507216,-p@chr6:56507200..56507216
-
Hg19::chr6:56507254..56507276,-p@chr6:56507254..56507276
-
Hg19::chr7:120778392..120778412,-p@chr7:120778392..120778412
-
Hg19::chr7:120789549..120789552,+p44@C7orf58
Hg19::chr7:120789556..120789585,+p11@C7orf58
Hg19::chr7:120789593..120789628,+p10@C7orf58
Hg19::chr7:123634848..123634862,+p1@uc010lkv.1
Hg19::chr7:47728559..47728598,+p@chr7:47728559..47728598
+
Hg19::chr7:80086544..80086546,-p@chr7:80086544..80086546
-
Hg19::chr7:80141328..80141339,-p2@GNAT3
Hg19::chr7:80141358..80141392,-p1@GNAT3
Hg19::chr7:80141406..80141411,-p3@GNAT3
Hg19::chr7:93169246..93169258,+p@chr7:93169246..93169258
+
Hg19::chr8:117816627..117816634,+p@chr8:117816627..117816634
+
Hg19::chr8:117816648..117816663,+p@chr8:117816648..117816663
+
Hg19::chr8:48079099..48079105,-p@chr8:48079099..48079105
-
Hg19::chr8:48079110..48079116,-p@chr8:48079110..48079116
-
Hg19::chr8:74985038..74985063,+p@chr8:74985038..74985063
+
Hg19::chr9:11935598..11935637,+p@chr9:11935598..11935637
+
Hg19::chr9:135932153..135932160,+p@chr9:135932153..135932160
+
Hg19::chr9:140335777..140335785,-p3@ENTPD8
Hg19::chr9:140335789..140335818,-p1@ENTPD8
Hg19::chr9:140348364..140348386,-p@chr9:140348364..140348386
-
Hg19::chr9:140348397..140348421,-p@chr9:140348397..140348421
-
Hg19::chr9:140348438..140348460,-p@chr9:140348438..140348460
-
Hg19::chrX:10645724..10645735,-p12@MID1
Hg19::chrX:11455274..11455297,-p@chrX:11455274..11455297
-
Hg19::chrX:11460430..11460434,-p@chrX:11460430..11460434
-
Hg19::chrX:11502792..11502801,-p@chrX:11502792..11502801
-
Hg19::chrX:11502822..11502831,-p@chrX:11502822..11502831
-
Hg19::chrX:11503012..11503022,-p@chrX:11503012..11503022
-
Hg19::chrX:151620193..151620201,-p4@GABRA3


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


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
maxillary sinus9.37e-991
paranasal sinus9.37e-991
Disease
Ontology termp-valuen
paranasal sinus cancer9.37e-991
maxillary sinus cancer9.37e-991
lung small cell carcinoma7.14e-264
respiratory system cancer7.63e-2616
bronchus cancer1.91e-157
bronchogenic carcinoma1.91e-157
lung carcinoma2.45e-129
lung cancer5.93e-0815


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data