Personal tools

Coexpression cluster:C228: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=DOID:305!1.34e-16!106;DOID:0050687!2.12e-15!143;DOID:162!3.44e-13!235;DOID:14566!2.34e-12!239
|ontology_enrichment_disease=DOID:305!1.34e-16!106;DOID:0050687!2.12e-15!143;DOID:162!3.44e-13!235;DOID:14566!2.34e-12!239
|ontology_enrichment_uberon=UBERON:0004921!1.42e-09!129;UBERON:0004185!1.42e-09!129;UBERON:0001007!2.56e-08!155;UBERON:0001555!2.56e-08!155;UBERON:0007026!2.56e-08!155;UBERON:0009497!3.48e-07!25;UBERON:0000015!3.48e-07!25;UBERON:0002423!3.48e-07!25;UBERON:0006235!3.48e-07!25;UBERON:0004161!3.48e-07!25;UBERON:0005409!7.20e-07!35
|ontology_enrichment_uberon=UBERON:0004921!1.42e-09!129;UBERON:0004185!1.42e-09!129;UBERON:0001007!2.56e-08!155;UBERON:0001555!2.56e-08!155;UBERON:0007026!2.56e-08!155;UBERON:0009497!3.48e-07!25;UBERON:0000015!3.48e-07!25;UBERON:0002423!3.48e-07!25;UBERON:0006235!3.48e-07!25;UBERON:0004161!3.48e-07!25;UBERON:0005409!7.20e-07!35
|tfbs_overrepresentation=0.962824,0.713355,0.996329,0.635934,0.943964,0.970687,0.596871,0.999811,0.497181,0.4162,0.599515,0.994895,0.627068,0.938132,0.964086,0.73302,0.820893,0.881897,0.674432,0.683483,0.986701,0.947102,0.829271,0.610156,0.584189,0.87667,0.862657,0.85991,0.829741,0.868106,0.991261,0.918123,0.313431,0.991979,0.758943,0.838609,1,0.59653,0.929358,0.759897,0.160748,0.402501,0.817788,0.790142,0.277863,0.533689,0.551121,0.984068,0.229293,0.499027,0.8596,0.683738,0.777642,0.866975,0.483069,0.554958,0.90457,0.992864,0.814666,0.201834,0.460629,0.964724,0.0928736,0.80454,0.32276,0.65723,0.993644,0.721671,0.84434,0.3278,0.999947,0.765021,0.573933,0.737862,0.143658,0.050366,0.160807,0.602811,0.543664,0.139663,0.0598982,0.776911,0.592431,0.919638,0.993414,0.937854,0.160355,0.992143,0.999973,0.737956,0.843225,0.283031,0.874027,0.633225,0.841916,0.919977,0.999714,0.451933,0.866218,0.789574,0.705817,0.998745,0.212667,0.541869,0.750173,0.578381,0.761404,0.926857,0.959988,0.998474,0.919913,0.510724,0.96484,0.308416,0.64677,0.508157,0.346011,0.700411,0.954657,0.540027,0.326148,0.73429,0.818068,0.843317,0.892676,0.375781,0.313772,0.265095,0.543501,0.949993,0.362322,0.799614,0.704075,0.37896,0.148972,0.683707,0.749922,0.691634,0.153846,0.0786397,0.378827,0.0669828,0.692394,0.864647,0.999991,0.187303,0.363968,0.542617,0.559959,0.930154,0.990229,0.398716,0.983744,0.107889,0.594263,0.477651,0.47695,0.902455,0.666144,0.158943,0.779551,0.87374,0.725425,0.641581,0.998643,0.458255,0.570162,0.534273,0.573132,0.250656,0.120639,0.953226,0.998852,0.683433,0.821238,0.857851,0.956065,0.594739,0.912878,0.527575,0.288765,0.751351,0.436901,0.720453,0.794587,0.485287,0.984668,0.571487,0.533519,0.359382,0.0887581,0.261021,0.933525,0.903226,0.915455,0.630826,0.81437,0.723362,0.764873,0.909353,0.575623,0.724043,0.137683,0.725289,0.805565,0.946631,0.787902,0.660983,0.344627,0.982751,0.621045,0.663981,0.930679,0.915905,0.996218,0.978233,0.975448,0.377046,0.739385,0.894202,0.95772,0.962901,0.864808,0.973446,0.470453,0.939052,0.954472,0.84399,0.724377,0.72098,0.999995,0.997319,0.586588,0.806951,0.875566,0.599853,0.632058,0.986701,0.975019,0.993246,0.784916,0.99986,0.88243,0.535016,0.723761,0.806915,0.827469,0.913417,0.963174,0.474568,0.693694,0.985475,0.924904,0.628605,0.628959,0.972547,0.904097,0.843605,0.774748,1,0.733146,0.981281,0.974941,0.774464,0.516098,0.825742,0.521934,0.864128,0.925488,0.802646,0.99882,0.391228,0.983763,0.999995,0.558183,0.551402,0.782555,0.949185,0.999987,0.999164,0.973999,0.975332,0.999996,1,0.923143,0.999989,0.948909,0.999565,0.963845,0.946279,0.889356,0.320999,0.998031,0.997612,0.999981,0.99428,0.892182,0.83948,0.99975,0.992658,0.992997,0.998265,0.426639,0.331781,0.594257,0.880812,0.4324,0.965543,0.747468,0.989324,0.987839,0.89352,0.999999,0.998071,0.999264,0.915001,0.985913,0.99774,0.983292,0.797662,0.999403,0.599565,0.984849,0.893275,0.995947,0.999858,0.81734,0.984071,0.999628,0.924665,0.922182,0.999899,0.865901,0.425235,0.991664,0.997648,0.91962,0.847552,0.999609,0.402611,0.999999,1,0.999994,0.898448,0.916207,0.612782,0.992605,0.95343,0.478496,0.99092,0.995928,0.960679,0.984502,0.702417,0.909182,0.996795,0.502351,0.0576747,0.791674,0.79272,0.999999,0.999991,0.99897,0.998793,0.999972,0.963756,0.967505,0.982968,0.962761,0.983333,0.999703,0.614766,0.218112,0.622645,0.999981,0.999205,0.999934,0.974821,0.973636,0.999843,0.999137,0.910611,0.999943,0.801232,1,0.996808,0.901932,0.610799,0.305718,0.681499,0.999995,0.968868,0.999358,0.987507,0.930693,1,0.467886,0.960557,0.630543,0.990139,0.99661,0.999995,0.507126,0.849421,0.66487,0.626786,0.807817,0.74101,0.575046,0.63182,0.751486,0.993803,0.819711,0.934213,0.872659,0.980395,0.998497,0.999937,0.999834,0.689268,0.60029,0.89624,0.774753,0.998525,0.998935,0.983363,0.996044,0.999985,0.95119,0.999972,0.999982,0.746873,0.956393,0.97121,0.999944,0.810931,0.611536,0.932208,0.999258,0.873707,0.493782,0.996234,0.636539,0.930527,0.130389,0.362201,0.997865,0.999359,0.938544,0.990125,0.941533,0.991293,0.908893,0.997488,0.999468,0.996565,0.775672,0.693971,0.987965,0.813309,0.346515,0.96009,0.765139,0.990962,0.999994,0.999994,0.987726,0.444142,0.706754,0.601471,0.979271,0.0646396,0.949896,0.903313,0.989647,0.738218,0.999951,0.31168,0.995248,0.965127,0.999964,7.52389e-05,0.978526,0.110844,0.39929,0.857446,0.558875,0.697099,0.678578,0.604263,0.0774024,0.291744,0.544267,0.992413,0.988308,0.937442,0.653386,0.533694,0.759849,0.783938,0.1007,0.884982,0.966916,0.938801,0.790216,0.986721,0.639583,0.990057,0.999752,0.940685,0.981599,0.985223,0.978328,0.849775,0.612154,0.208589,0.891169,0.678224,0.79294,0.0949033,0.980617,0.956886,0.95655,0.467922,0.945794,0.609868,0.670938,0.992108,0.85723,0.820664,0.164833,0.0738503,0.934445,0.859676,0.332579,0.998956,0.999995,0.808627,0.262107,0.409685,0.723176,0.994196,0.514958,0.48434,0.973948,0.819223,0.325417,0.813198,0.697304,0.585903,0.516394,0.559313,0.9977,0.978899,0.841394,0.645141,0.906476,0.99993,0.500956,0.976629,0.994043,0.564928,0.719448,0.995873,0.506407,0.687663,0.91008,0.998095,0.451044,1,0.832295,0.55907,0.563771,0.689549,0.959844,0.721245,0.96146,0.931291,0.786038,0.999638,0.996276,0.99908,0.805307,0.90183,0.526808,0.98454,0.999782,0.963221,0.957242,0.728327,0.819715,0.854192,0.995905,0.999083,0.632664,0.872576,0.999555,0.792757,0.496038,0.908339,0.776308,0.787414,0.998934,0.99994,0.667157,0.636487,0.65384,0.7326,0.0249522,0.148731,0.62325,0.0360323,0.796667,0.998776,0.99999,0.972357,0.961631,0.993066,0.92745,0.987944,0.912027,0.999989,0.706366,0.267082,0.997865,0.726893,0.907219,0.999382,0.783286,0.966864,0.713191,0.527061,0.0628628,0.211446,1,1,0.855462,0.962404,0.684616,0.763298,0.907385,0.649066,0.615827,0.950672,0.482846,0.619296,0.910487,0.778189,0.995004,0.134978,0.00885239,0.791772,0.613893,0.681901,0.714159,0.866853,0.353838,0.667152,0.889599,0.703761,0.912682,0.225254,0.999076,0.967172,0.654549,0.993836,0.890778,0.997442,0.902785,0.998259,0.441115,0.737536,0.638629,0.424978,1,0.969825,0.786015,0.591906,0.723066,0.223082,0.655229,0.879659,0.969236,0.978893,0.820526,0.808237,0.780933,0.937397,0.829076,0.736286,0.836465,0.997732,0.45144,0.706492,0.423623,0.906204,0.872472,0.757534,0.38073,0.81942,0.886085,0.997879,0.0279686,0.238104,0.414344,0.730915,0.859715,0.91548,0.727111,0.929274,0.827002,0.0657699,0.970148,0.949004,0.999954,0.716022,0.997182,0.982764,0.99383,0.995618,0.99998,1,0.532121,0.995014,0.786056,0.600795,0.948396,0.998968,0.995919,0.983367,0.958055,0.0507456,0.999925,0.953321,0.91389,0.939093,0.864263,0.665528,0.978253,0.706779,0.999752,0.997031,0.999997,0.999903,0.896104,0.999917,0.941058,0.726104,0.999991,0.99788,0.984819,0.999999,1,0.286552,0.99921,0.99775,0.990373,0.914092,0.99994,0.999943,0.999995,0.971484,0.975444,0.941228,0.403753,0.996421,0.997283,0.990502,0.753456,0.945326,0.982359,0.682098,0.999997,0.997742,0.999957,0.999984,0.0125085,0.999983,1,0.834789,0.999992,0.963761,0.999998,0.956461,1,0.999934,1,0.847716,0.678251,0.109187,0.745875,0.859774,0.938788,0.396432,0.932511,0.0658809,0.821988,0.984613,0.347446,0.789945,0.99404,0.883588,0.629425,0.0187208,0.536968,0.95269,0.983952,0.781294,0.966947,0.999811,0.976415,0.754322,0.99246,0.812196,0.999943,0.623298,0.999629,0.93744,0.99362,1,0.989569,0.965477,0.926867,0.435769,0.988079,0.999996,0.999651,0.696014,0.928274,0.813882,0.999999,0.327084,0.478427,0.269219,0.953521,0.99986,0.759052,0.997823,0.963751,0.985094,0.994557,0.906591,0.952558,0.999601,0.983171,0.198423,0.847888,0.645392,0.965415,0.993522,0.286542,0.350172,0.999873,0.628075,0.346032,0.999932,0.943477,0.940115,0.987066,0.788521,0.918393,0.936771,0.869158,0.998621,0.989683,0.583887,0.978663,0.830171,0.279016,0.972212,0.999493,0.874291,0.969608,0.25652,0.999999,0.977465,0.950842,0.341493,0.834005,0.792474,0.670894,0.918463,0.57019,0.357287,0.478305,0.914604,0.877029,0.839746,0.999863,0.455939,0.999545,0.85284,0.763437,0.499302,0.79778,0.697954,0.50775,0.631099,0.424322,0.624756,0.786155,0.760214,0.498849,0.637308,0.501383,0.146171,0.527319,0.580498,0.873976,0.88869,0.394612,0.858423,0.997753,0.525028,0.452577,0.983202,0.648681,0.888104,0.596202,0.972679,0.778571,0.746324,0.989703,0.986067,0.511288,0.837136,0.495809,0.867931,0.935249,0.775981,0.969017,0.666554,0.842529,0.945233,0.992005,0.837673,0.994466,0.0584112,0.86043,0.313609,0.916281,0.631348,0.970755,0.974168,0.903483,0.734263,0.55571,0.412749,0.669762,0.618452,0.772776,0.946113,0.533394,0.969168,0.9291,0.632326,0.215589,0.718923,0.136239,0.870916,0.994162,0.825122,0.516381,0.985545,0.944875,0.9837,0.874355,0.861473,0.126512,0.139551,0.514689,0.791137,0.611269,0.788095,0.864221,0.749656,0.848655,0.958611,0.952576,0.823767,0.818671,0.997317,0.921724,0.967375,0.528025,0.980284,0.677995,0.955481,0.663933,0.996602,0.970297,0.786006,0.94392,0.994534,0.747492,0.218091,0.622227,0.990599,0.646105,0.522555,0.5745,0.0345244,0.325495,0.676633,0.679746,0.680922,0.851585,0.813384,0.576513,0.316129,0.985898,0.596819,0.224271,0.80228,0.973416,0.930592,0.826606,0.629102,0.745916,0.748944,0.744368,0.898065,0.757877,0.805865,0.942044,0.908291,0.239364,0.76121,0.307145,0.538702,0.800327,0.335986,0.437998,0.917294,0.653241,0.957515,0.950562,0.271327,0.489455,0.0921126,0.933604,0.852535,0.911487,0.685564,0.877139,0.334844,0.700692,0.344355,0.672989,0.917597,0.325908,0.961126,0.467392,0.882193,0.425485,0.719072,0.824434,0.637101,0.250134,0.911853,0.981799,0.975711,0.601889,0.86873,0.575041,0.897591,0.707873,0.875439,0.118005,0.268032,0.900242,0.971983,0.958222,0.45034,0.988929,0.889298,0.41952,0.370989,0.685821,0.737962,0.557946,0.0538853,0.89973
}}
}}

Revision as of 18:09, 8 August 2012


Full id: C228_colon_Intestinal_Prostate_hepatoblastoma_hepatocellular_testis_adult



Phase1 CAGE Peaks

Hg19::chr10:104629450..104629461,+p3@AS3MT
Hg19::chr10:104629528..104629542,+p6@AS3MT
Hg19::chr10:24726425..24726450,+p@chr10:24726425..24726450
+
Hg19::chr10:24726466..24726472,+p@chr10:24726466..24726472
+
Hg19::chr10:71850931..71850940,+p@chr10:71850931..71850940
+
Hg19::chr11:118082912..118082938,-p@chr11:118082912..118082938
-
Hg19::chr11:13994430..13994436,+p@chr11:13994430..13994436
+
Hg19::chr11:9878820..9878833,-p@chr11:9878820..9878833
-
Hg19::chr12:102437910..102437918,-p@chr12:102437910..102437918
-
Hg19::chr12:69726073..69726089,-p@chr12:69726073..69726089
-
Hg19::chr12:93399748..93399757,+p@chr12:93399748..93399757
+
Hg19::chr12:93399816..93399825,+p@chr12:93399816..93399825
+
Hg19::chr12:93399852..93399859,+p@chr12:93399852..93399859
+
Hg19::chr12:93399866..93399909,+p@chr12:93399866..93399909
+
Hg19::chr12:93399913..93399929,+p@chr12:93399913..93399929
+
Hg19::chr13:32790605..32790619,+p@chr13:32790605..32790619
+
Hg19::chr13:32790683..32790693,+p@chr13:32790683..32790693
+
Hg19::chr13:42179573..42179585,-p@chr13:42179573..42179585
-
Hg19::chr13:46093155..46093164,+p@chr13:46093155..46093164
+
Hg19::chr13:46093198..46093203,+p@chr13:46093198..46093203
+
Hg19::chr14:22850283..22850310,-p@chr14:22850283..22850310
-
Hg19::chr15:60749901..60749904,-p@chr15:60749901..60749904
-
Hg19::chr15:71003168..71003184,-p@chr15:71003168..71003184
-
Hg19::chr15:89540938..89540967,-p@chr15:89540938..89540967
-
Hg19::chr16:19661585..19661596,+p@chr16:19661585..19661596
+
Hg19::chr16:19661615..19661621,+p@chr16:19661615..19661621
+
Hg19::chr16:78274724..78274726,+p@chr16:78274724..78274726
+
Hg19::chr18:24722967..24722980,-p4@CHST9
Hg19::chr18:24722995..24723030,-p3@CHST9
Hg19::chr18:6929797..6929812,-p1@uc002kng.1
Hg19::chr18:7034928..7034943,-p@chr18:7034928..7034943
-
Hg19::chr18:7133714..7133725,-p@chr18:7133714..7133725
-
Hg19::chr19:56653064..56653103,+p1@AK124209
Hg19::chr1:111023361..111023366,+p1@CYMP
Hg19::chr1:19522637..19522659,-p@chr1:19522637..19522659
-
Hg19::chr1:19522690..19522704,-p@chr1:19522690..19522704
-
Hg19::chr21:42694732..42694744,+p3@FAM3B
Hg19::chr21:42694788..42694804,+p@chr21:42694788..42694804
+
Hg19::chr2:127873614..127873626,+p@chr2:127873614..127873626
+
Hg19::chr2:137966134..137966139,+p@chr2:137966134..137966139
+
Hg19::chr2:176484786..176484791,+p@chr2:176484786..176484791
+
Hg19::chr2:28340333..28340358,+p@chr2:28340333..28340358
+
Hg19::chr2:62189730..62189756,+p@chr2:62189730..62189756
+
Hg19::chr3:139373728..139373733,+p@chr3:139373728..139373733
+
Hg19::chr4:107237136..107237147,+p10@AIMP1
Hg19::chr5:142213315..142213336,+p@chr5:142213315..142213336
+
Hg19::chr6:26500524..26500540,+p@chr6:26500524..26500540
+
Hg19::chr6:41492615..41492636,-p@chr6:41492615..41492636
-
Hg19::chr6:80382928..80382946,+p@chr6:80382928..80382946
+
Hg19::chr6:8446968..8446983,+p@chr6:8446968..8446983
+
Hg19::chr7:117329764..117329777,+p1@ENST00000429014
Hg19::chr7:97958802..97958804,-p@chr7:97958802..97958804
-
Hg19::chr8:55331615..55331618,+p@chr8:55331615..55331618
+
Hg19::chr8:99425711..99425716,-p1@ENST00000518956
Hg19::chr9:129830560..129830568,+p@chr9:129830560..129830568
+
Hg19::chr9:138591341..138591346,-p3@SOHLH1
Hg19::chr9:35801527..35801540,+p@chr9:35801527..35801540
+
Hg19::chr9:71347655..71347671,+p@chr9:71347655..71347671
+
Hg19::chrX:21849506..21849512,-p@chrX:21849506..21849512
-
Hg19::chrX:24690735..24690744,-p10@PCYT1B
Hg19::chrX:32583949..32583951,-p@chrX:32583949..32583951
-
Hg19::chrX:75367265..75367270,-p@chrX:75367265..75367270
-


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


GO IDGO nameFDR corrected p-value
GO:0004105choline-phosphate cytidylyltransferase activity0.020116143791594
GO:0001537N-acetylgalactosamine 4-O-sulfotransferase activity0.020116143791594
GO:0006656phosphatidylcholine biosynthetic process0.020116143791594
GO:0046470phosphatidylcholine metabolic process0.020116143791594
GO:0043231intracellular membrane-bound organelle0.020116143791594
GO:0043227membrane-bound organelle0.020116143791594
GO:0030073insulin secretion0.0271777219978296
GO:0030072peptide hormone secretion0.0271777219978296
GO:0002790peptide secretion0.0271777219978296
GO:0030166proteoglycan biosynthetic process0.0271777219978296
GO:0043229intracellular organelle0.0271777219978296
GO:0043226organelle0.0271777219978296
GO:0005794Golgi apparatus0.0310458162510283
GO:0006029proteoglycan metabolic process0.0310458162510283
GO:0046879hormone secretion0.0339619745399327
GO:0015833peptide transport0.0353773819092401
GO:0042446hormone biosynthetic process0.0353773819092401
GO:0005783endoplasmic reticulum0.0353773819092401
GO:0046474glycerophospholipid biosynthetic process0.0353773819092401
GO:0030203glycosaminoglycan metabolic process0.0353773819092401
GO:0006022aminoglycan metabolic process0.0353773819092401
GO:0008146sulfotransferase activity0.0353773819092401
GO:0044424intracellular part0.0357889772004106
GO:0016782transferase activity, transferring sulfur-containing groups0.0386429063395159
GO:0003001generation of a signal involved in cell-cell signaling0.0418642014843719
GO:0006790sulfur metabolic process0.0486792011353691
GO:0042445hormone metabolic process0.0486792011353691
GO:0008654phospholipid biosynthetic process0.0490627688252635



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>


Disease
Ontology termp-valuen
carcinoma1.34e-16106
cell type cancer2.12e-15143
cancer3.44e-13235
disease of cellular proliferation2.34e-12239


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


"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.