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Coexpression cluster:C418: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0030308!negative regulation of cell growth!0.039468234767104!58189$GO:0045792!negative regulation of cell size!0.039468234767104!58189$GO:0045926!negative regulation of growth!0.039468234767104!58189$GO:0001558!regulation of cell growth!0.0498755484983084!58189$GO:0004867!serine-type endopeptidase inhibitor activity!0.0498755484983084!58189$GO:0016049!cell growth!0.0498755484983084!58189$GO:0040008!regulation of growth!0.0498755484983084!58189$GO:0008361!regulation of cell size!0.0498755484983084!58189
|gostat_on_coexpression_clusters=GO:0030308!negative regulation of cell growth!0.039468234767104!58189$GO:0045792!negative regulation of cell size!0.039468234767104!58189$GO:0045926!negative regulation of growth!0.039468234767104!58189$GO:0001558!regulation of cell growth!0.0498755484983084!58189$GO:0004867!serine-type endopeptidase inhibitor activity!0.0498755484983084!58189$GO:0016049!cell growth!0.0498755484983084!58189$GO:0040008!regulation of growth!0.0498755484983084!58189$GO:0008361!regulation of cell size!0.0498755484983084!58189
|id=C418
|id=C418
|ontology_enrichment_celltype=CL:0000055!5.65e-11!180;CL:0000057!1.37e-07!75;CL:0000147!9.77e-07!14
|ontology_enrichment_celltype=CL:0002504!3.82e-13!3;CL:1000279!3.82e-13!3;CL:1000280!3.82e-13!3;CL:1000487!4.85e-09!2
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!6.30e-27!115;UBERON:0000475!8.53e-18!365;UBERON:0000481!4.71e-16!347;UBERON:0003075!1.01e-13!86;UBERON:0007284!1.01e-13!86;UBERON:0000033!1.38e-13!123;UBERON:0000153!2.87e-13!129;UBERON:0007811!2.87e-13!129;UBERON:0005743!1.15e-12!86;UBERON:0000062!2.49e-12!511;UBERON:0002346!3.60e-12!90;UBERON:0000064!3.93e-12!219;UBERON:0004121!4.14e-12!169;UBERON:0000955!5.97e-12!69;UBERON:0006238!5.97e-12!69;UBERON:0001017!1.26e-11!82;UBERON:0000924!3.76e-11!173;UBERON:0006601!3.76e-11!173;UBERON:0000468!4.80e-11!659;UBERON:0002616!4.96e-11!59;UBERON:0001049!5.72e-11!57;UBERON:0005068!5.72e-11!57;UBERON:0006241!5.72e-11!57;UBERON:0007135!5.72e-11!57;UBERON:0003056!1.50e-10!61;UBERON:0000073!2.70e-10!94;UBERON:0001016!2.70e-10!94;UBERON:0000477!6.03e-10!286;UBERON:0003080!1.47e-08!42;UBERON:0002780!2.74e-08!41;UBERON:0001890!2.74e-08!41;UBERON:0006240!2.74e-08!41;UBERON:0000467!4.24e-08!625;UBERON:0001737!5.72e-08!9;UBERON:0000480!6.40e-08!626;UBERON:0000063!1.35e-07!97;UBERON:0001893!2.68e-07!34;UBERON:0002791!5.84e-07!33;UBERON:0002020!6.44e-07!34;UBERON:0003528!6.44e-07!34;UBERON:0001869!7.27e-07!32
|ontology_enrichment_uberon=UBERON:0001737!4.16e-37!9;UBERON:0004921!1.12e-25!118;UBERON:0001007!1.66e-24!145;UBERON:0001555!1.66e-24!145;UBERON:0007026!1.66e-24!145;UBERON:0004119!5.19e-23!160;UBERON:0000925!5.19e-23!160;UBERON:0006595!5.19e-23!160;UBERON:0001557!2.85e-20!19;UBERON:0000160!6.96e-17!17;UBERON:0011216!9.51e-14!223;UBERON:0000162!1.56e-13!14;UBERON:0001353!1.56e-13!14;UBERON:0000163!1.56e-13!14;UBERON:0006866!1.56e-13!14;UBERON:0000164!1.56e-13!14;UBERON:0000931!1.56e-13!14;UBERON:0008947!3.32e-13!38;UBERON:0003258!3.32e-13!38;UBERON:0001046!1.40e-12!19;UBERON:0004122!1.46e-12!15;UBERON:0005409!3.59e-11!25;UBERON:0001155!4.49e-11!9;UBERON:0000065!5.07e-10!54;UBERON:0000161!2.57e-09!36;UBERON:0000063!3.55e-09!98;UBERON:0000481!3.71e-09!342;UBERON:0002367!4.15e-09!11;UBERON:0010147!4.15e-09!11;UBERON:0009846!4.15e-09!11;UBERON:0003353!4.15e-09!11;UBERON:0004902!4.15e-09!11;UBERON:0003820!4.15e-09!11;UBERON:0009847!4.15e-09!11;UBERON:0001004!5.09e-09!74;UBERON:0000059!5.28e-09!11;UBERON:0000072!1.95e-08!47;UBERON:0003937!2.54e-08!12;UBERON:0005399!2.54e-08!12;UBERON:0002108!5.99e-08!4;UBERON:0007023!7.53e-08!114;UBERON:0000077!9.79e-08!29;UBERON:0000477!1.33e-07!373;UBERON:0001041!3.60e-07!87;UBERON:0000062!3.65e-07!503;UBERON:0000064!6.00e-07!218
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60683,0.845922,0.341477,0.475812,0.978845,0.244418,0.871722,0.611504,0.285078,0.401003,0.940325,0.663367,0.00309032,0.253687,0.0437421,0.21481,0.897573,0.727803,0.281212,0.533556,0.376038,0.726475,0.0380379,0.869874,0.827352,0.689927,0.599934,0.658694,0.940323,0.483051,0.79357,0.509279,0.0904052,0.255903,0.735996,0.719463,0.782456,0.717165,0.539939,0.954371,0.312567,0.332237,0.564273,0.867953,0.695233,0.489143,0.618473,0.00644494,0.691008,0.920188,0.129583,0.358267,0.582073,0.348035,0.412488,0.480191,0.559317,0.726494,0.250566,0.47392,0.752053,0.986956,0.993114,0.334527,0.541426,0.285512,0.831617,0.804681,0.960465,0.389894,0.0632597,0.98439,0.407464,0.799376,0.797754,0.460226,0.623462,0.323038,0.260611,0.673241,0.798919,0.995524,0.999165,0.854421,0.152235,0.247693,0.440678,0.616877,0.344423,0.205529,0.301534,0.480513,0.322542,0.622103,0.455142,0.881957,0.404158,0.273973,0.694451,0.318682,0.369884,0.0038302,0.556486,0.210749,0.603049,0.617317,0.387716,0.891898,0.482397,0.771859,0.74782,0.835854,0.607902,0.590531,0.841514,0.794588,0.457846,0.159299,0.416886,0.829625,0.738249,0.997129,0.756244,0.462976,0.552172,0.40413,0.14258,0.743469,0.210664,0.167419,0.0213212,0.107695,0.348171,0.884442,0.910512,0.774275,0.652189,0.518155,0.651573,0.632347,0.630636,0.821201,0.798271,0.564129,0.116327,0.908076,0.716919,0.583524,0.709031,0.598291,0.632083,0.194051,0.783851,0.547048,0.855759,0.449627,0.519729,0.5071,0.818081,0.757301,0.0396169,0.711754,0.398064,0.684454,0.805515,0.871473,0.888045,0.931432,0.959337,0.000287305,0.935193,0.68994,0.309455,0.119479,0.659858,0.97852,0.378317,0.151425,0.375601,0.482597,0.953256,0.739256,0.840445,0.553127,0.278328,0.249352,0.976197,0.930436,0.11047,0.194427,0.0299393,0.692535,0.90689,0.779527,0.0276105,0.828644,0.717629,0.997902,0.380849,0.636007,0.883137,0.0903937,0.99967,0.385095,0.938655,0.69519,0.796829,0.526316,0.776172,0.775681,0.414972,0.156908,0.287133,0.971582,0.131454,0.896053,0.107381,0.957146,0.902133,0.799942,0.397021,0.96385,0.841037,0.431683,0.942649,0.0075627,0.347284,0.857736,0.0184696,0.971129,0.995515,0.301061,0.98889,0.864828,0.849716,0.556126,0.00362411,0.797585,0.00396175,0.840054,2.53756e-07,0.765967,0.413122,0.719066,0.644789,0.569329,0.209831,0.012687,0.0645184,0.887447,0.289024,0.766657,0.0907066,0.209813,0.811405,0.0620184,0.714051,0.684712,0.443933,0.563282,0.834074,0.116739,0.136536,0.891659,0.773668,0.997891,0.99998,0.987948,6.7232e-05,0.65618,0.938211,0.038704,0.772668,0.00744027,0.298941,0.135347,0.353904,0.333478,0.781666,0.548069,0.0373256,0.0428491,0.636187,0.476719,0.250943,0.746486,0.0110394,0.0349908,0.729617,0.612731,0.591727,0.00540987,0.655873,0.84982,0.0192089,0.356942,0.725098,0.156369,0.931701,0.738974,0.0357047,0.20053,0.979121,0.952734,0.951031,0.0652809,0.000323344,0.997292,0.0361603,0.00850632,0.962882,0.0369219,0.15628,0.145486,0.27691,0.829944,0.592691,0.777144,0.953115,0.0769596,0.765099,0.96828,0.779127,0.796404,0.930061,0.894738,0.931498,0.115479,0.906329,0.507734,0.266876,0.114676,0.519945,0.227367,0.849936,0.870699,0.79647,0.0469804,0.852821,0.801537,0.491279,0.751589,0.0453018,0.0031448,0.826662,0.241636,0.824157,0.463118,0.923034,0.772011,0.0340486,0.436579,0.873106,0.308014,0.544605,0.56621,0.779955,0.0986034,0.363669,0.704157,0.856057,0.229014,0.490365,0.833563,0.615261,0.620995,0.459886,0.954966,0.871172,0.841991,0.513922,0.666068,0.553032,0.241285,0.557937,0.668363,0.808455,0.882841,0.934305,0.171719,0.690017,0.857323,0.906574,0.349163,0.11565,0.857474,0.120216,0.632164,0.0443313,0.886034,0.771051,0.174147,0.785658,0.279009,0.434406,0.360297,0.321937,0.049645,0.289869,0.873883,0.40917,0.656007,0.579256,0.615853,0.0937863,0.868288,0.762566,0.613632,0.272023,0.668878,0.1095,0.95345,0.809846,0.179153,0.916155,0.394809,0.334071,0.667946,0.816905,0.0944129,0.130418,0.917279,0.248613,0.296011,0.865306,0.306722,0.720561,0.533358,0.426987,0.642001,0.0640739,0.032983,0.022767,0.119212,0.71486,0.113494,0.898958,0.757791,0.689901,0.915843,0.8776,0.0752977,0.802337,0.0111165,0.847687,0.598206,0.935973,0.607593,0.510875,0.560848,0.069712,0.368167,0.369103,0.744723,0.491808,0.292816,0.368891,0.622781,0.920233,0.861711,0.251432,0.00776918,0.256423,0.506646,0.577077,0.424465,0.294891,0.423054,0.601773,0.435547,0.483649,0.318655,0.00312844,0.313355,0.00293305,0.542667,0.268004,0.701284,0.567788,0.559125,0.940116,0.688653,0.720186,0.921516,0.705191,0.844425,0.883624,0.342219,0.43978,0.224435,0.525737,0.255119,0.691923,0.428522,0.854091,0.843017,0.000692015,0.657048,0.635971,0.641475,0.607287,0.878949,0.639657,0.109904,0.260355,0.936552,0.302474,0.429467,0.441869,0.624512,0.559017,0.642135,0.881424,0.577814,0.568247,0.527024,0.392029,0.791885,0.176622,0.73971,0.459206,0.738258,0.588303,0.877271,0.0805518,0.759718,0.14737,0.437713,0.853655,0.320082
}}
}}

Revision as of 15:44, 19 October 2012


Full id: C418_normal_Melanocyte_Hep2_cervical_umbilical_osteosarcoma_gall



Phase1 CAGE Peaks

Hg19::chr16:84328230..84328235,+p10@WFDC1
Hg19::chr16:84328254..84328265,+p8@WFDC1
Hg19::chr16:84328292..84328340,+p2@WFDC1
Hg19::chr16:84328345..84328375,+p5@WFDC1
Hg19::chr16:84328382..84328416,+p3@WFDC1
Hg19::chr16:84328429..84328455,+p4@WFDC1
Hg19::chr16:84328459..84328512,+p1@WFDC1
Hg19::chr16:84353062..84353074,+p@chr16:84353062..84353074
+
Hg19::chr16:84353087..84353097,+p@chr16:84353087..84353097
+
Hg19::chr16:84353122..84353133,+p@chr16:84353122..84353133
+
Hg19::chr16:84363141..84363156,+p@chr16:84363141..84363156
+
Hg19::chr16:86229885..86229905,+p@chr16:86229885..86229905
+
Hg19::chr16:86229916..86229943,+p@chr16:86229916..86229943
+
Hg19::chr16:86532148..86532166,-p@chr16:86532148..86532166
-
Hg19::chr16:86546627..86546642,+p@chr16:86546627..86546642
+
Hg19::chr1:192735472..192735488,-p@chr1:192735472..192735488
-
Hg19::chr1:204839198..204839211,+p@chr1:204839198..204839211
+
Hg19::chr1:204839218..204839235,+p4@NFASC
Hg19::chr20:49253425..49253427,-p14@FAM65C
Hg19::chr20:49253452..49253461,-p12@FAM65C
Hg19::chr20:49269691..49269695,+p1@ENST00000435177
Hg19::chr7:54879609..54879616,-p@chr7:54879609..54879616
-
Hg19::chr7:54879626..54879647,-p@chr7:54879626..54879647
-
Hg19::chr7:54879666..54879725,-p@chr7:54879666..54879725
-
Hg19::chr8:53477984..53477997,-p1@FAM150A


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:0030308negative regulation of cell growth0.039468234767104
GO:0045792negative regulation of cell size0.039468234767104
GO:0045926negative regulation of growth0.039468234767104
GO:0001558regulation of cell growth0.0498755484983084
GO:0004867serine-type endopeptidase inhibitor activity0.0498755484983084
GO:0016049cell growth0.0498755484983084
GO:0040008regulation of growth0.0498755484983084
GO:0008361regulation of cell size0.0498755484983084



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>


Uber Anatomy
Ontology termp-valuen
larynx4.16e-379
subdivision of digestive tract1.12e-25118
digestive system1.66e-24145
digestive tract1.66e-24145
primitive gut1.66e-24145
endoderm-derived structure5.19e-23160
endoderm5.19e-23160
presumptive endoderm5.19e-23160
upper respiratory tract2.85e-2019
intestine6.96e-1717
organ system subdivision9.51e-14223
cloaca1.56e-1314
anal region1.56e-1314
embryonic cloaca1.56e-1314
terminal part of digestive tract1.56e-1314
primitive urogenital sinus1.56e-1314
proctodeum1.56e-1314
respiratory primordium3.32e-1338
endoderm of foregut3.32e-1338
hindgut1.40e-1219
genitourinary system1.46e-1215
gastrointestinal system3.59e-1125
colon4.49e-119
respiratory tract5.07e-1054
orifice2.57e-0936
organ segment3.55e-0998
multi-tissue structure3.71e-09342
prostate gland4.15e-0911
male accessory sex gland4.15e-0911
embryonic cloacal epithelium4.15e-0911
epithelium of hindgut4.15e-0911
urogenital sinus epithelium4.15e-0911
prostate bud4.15e-0911
prostate field4.15e-0911
respiratory system5.09e-0974
large intestine5.28e-0911
segment of respiratory tract1.95e-0847
sex gland2.54e-0812
male reproductive gland2.54e-0812
small intestine5.99e-084
adult organism7.53e-08114
mixed endoderm/mesoderm-derived structure9.79e-0829
anatomical cluster1.33e-07373
foregut3.60e-0787
organ3.65e-07503
organ part6.00e-07218


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


This analysis result is provided for C0 - C305 clusters.