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Coexpression cluster:C167: Difference between revisions

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|tfbs_overrepresentation_for_novel_motifs=0.00746127,8.86637e-05,0.0484454,0.225903,0.708811,0.372832,0.0989704,0.716832,0.425548,0.00771417,0.0350419,0.482068,0.0019961,0.0302287,0.899857,0.477764,0.0416227,0.551275,0.0531914,0.179032,1.22914,0.0123259,0.00208649,0.678246,0.0397685,0.160258,0.19446,0.205976,0.0261779,0.0611134,0.0689981,0.193069,0.00102377,0.221858,0.00441351,0.000183664,0.0118033,0.225043,0.382871,0.000151551,0.850492,0.2169,0.104364,0.375363,0.000673251,0.073197,0.0341765,0.157278,0.828587,0.0262369,0.346988,0.109594,0.0664302,0.268754,0.451618,0.0311196,1.45961,0.0221355,0.33722,0.154693,0.0651247,0.00649437,0.159827,0.139141,0.0412444,0.0272629,0.573694,0.462698,0.183773,0.336258,0.0179487,0.261615,3.36278e-05,0.44898,0.000165155,0.0663643,0.109783,0.0309258,1.55651,0.393518,0.498993,0.0344933,0.662412,0.250085,0.120679,3.46576e-09,0.225986,0.395651,0.205679,0.54562,0.256809,0.108135,0.457808,2.34989,0.002795,0.0618706,0.57847,0.250556,0.211263,0.0508616,0.188384,1.19114,0.0696122,0.667199,0.106428,0.00935675,0.349044,0.0874332,0.0141208,0.00674984,0.0567147,0.242046,0.941973,0.494898,0.225459,0.247828,6.2261e-05,0.140173,0.810095,0.218151,0.142155,0.64725,1.06083,0.700576,0.300058,0.876123,0.362619,0.213322,0.495067,0.0629632,1.17478,0.816028,0.514856,0.689213,0.265492,0.0145185,2.34703,0.759206,0.667983,0.958262,0.590709,0.213593,0.578829,0.070344,0.786806,0.145619,0.239814,0.809216,0.505257,0.396039,0.0418782,2.51056e-06,0.351685,0.029595,0.871796,0.943879,0.909165,0.225969,1.04078,0.0263829,0.212838,0.675848,0.0477464,0.212744,0.837618,0.424609,0.105953,0.373956,0.00136834
|tfbs_overrepresentation_for_novel_motifs=0.00746127,8.86637e-05,0.0484454,0.225903,0.708811,0.372832,0.0989704,0.716832,0.425548,0.00771417,0.0350419,0.482068,0.0019961,0.0302287,0.899857,0.477764,0.0416227,0.551275,0.0531914,0.179032,1.22914,0.0123259,0.00208649,0.678246,0.0397685,0.160258,0.19446,0.205976,0.0261779,0.0611134,0.0689981,0.193069,0.00102377,0.221858,0.00441351,0.000183664,0.0118033,0.225043,0.382871,0.000151551,0.850492,0.2169,0.104364,0.375363,0.000673251,0.073197,0.0341765,0.157278,0.828587,0.0262369,0.346988,0.109594,0.0664302,0.268754,0.451618,0.0311196,1.45961,0.0221355,0.33722,0.154693,0.0651247,0.00649437,0.159827,0.139141,0.0412444,0.0272629,0.573694,0.462698,0.183773,0.336258,0.0179487,0.261615,3.36278e-05,0.44898,0.000165155,0.0663643,0.109783,0.0309258,1.55651,0.393518,0.498993,0.0344933,0.662412,0.250085,0.120679,3.46576e-09,0.225986,0.395651,0.205679,0.54562,0.256809,0.108135,0.457808,2.34989,0.002795,0.0618706,0.57847,0.250556,0.211263,0.0508616,0.188384,1.19114,0.0696122,0.667199,0.106428,0.00935675,0.349044,0.0874332,0.0141208,0.00674984,0.0567147,0.242046,0.941973,0.494898,0.225459,0.247828,6.2261e-05,0.140173,0.810095,0.218151,0.142155,0.64725,1.06083,0.700576,0.300058,0.876123,0.362619,0.213322,0.495067,0.0629632,1.17478,0.816028,0.514856,0.689213,0.265492,0.0145185,2.34703,0.759206,0.667983,0.958262,0.590709,0.213593,0.578829,0.070344,0.786806,0.145619,0.239814,0.809216,0.505257,0.396039,0.0418782,2.51056e-06,0.351685,0.029595,0.871796,0.943879,0.909165,0.225969,1.04078,0.0263829,0.212838,0.675848,0.0477464,0.212744,0.837618,0.424609,0.105953,0.373956,0.00136834
|tfbs_overrepresentation_jaspar=MA0003.1;1.1982e-10,MA0004.1;0.181519,MA0006.1;0.0090782,MA0007.1;0.61306,MA0009.1;0.303189,MA0014.1;1.11576e-08,MA0017.1;1.19728,MA0019.1;0.0520359,MA0024.1;0.0527495,MA0025.1;0.469198,MA0027.1;1.4258,MA0028.1;0.0124654,MA0029.1;1.23077,MA0030.1;0.77915,MA0031.1;0.614501,MA0038.1;0.216182,MA0040.1;1.25232,MA0041.1;0.544248,MA0042.1;1.14162,MA0043.1;2.77125,MA0046.1;1.01957,MA0048.1;0.108903,MA0050.1;1.45418,MA0051.1;2.34114,MA0052.1;0.484532,MA0055.1;0.000661905,MA0056.1;0,MA0057.1;0.00406869,MA0058.1;0.126207,MA0059.1;0.0277227,MA0060.1;0.0187156,MA0061.1;0.139839,MA0063.1;0,MA0066.1;0.101569,MA0067.1;0.738836,MA0068.1;0.0867112,MA0069.1;0.0845247,MA0070.1;0.0801129,MA0071.1;1.6601,MA0072.1;2.58874,MA0073.1;6.06579e-07,MA0074.1;0.0330999,MA0076.1;0.0356234,MA0077.1;0.554384,MA0078.1;0.382669,MA0081.1;0.21325,MA0083.1;0.0936761,MA0084.1;0.406292,MA0087.1;0.956044,MA0088.1;0.00837569,MA0089.1;0,MA0090.1;0.0946187,MA0091.1;0.489781,MA0092.1;0.760001,MA0093.1;0.103143,MA0095.1;0,MA0098.1;0,MA0100.1;0.112981,MA0101.1;0.18107,MA0103.1;0.14819,MA0105.1;0.00417429,MA0106.1;0.0503662,MA0107.1;0.101342,MA0108.2;0.144366,MA0109.1;0,MA0111.1;0.110018,MA0113.1;0.801827,MA0114.1;0.320913,MA0115.1;2.5681,MA0116.1;0.0328218,MA0117.1;0.705725,MA0119.1;0.782213,MA0122.1;0.37857,MA0124.1;0.561358,MA0125.1;0.4453,MA0130.1;0,MA0131.1;0.218941,MA0132.1;0,MA0133.1;0,MA0135.1;0.103592,MA0136.1;0.625608,MA0139.1;0.000230155,MA0140.1;2.90878,MA0141.1;0.209076,MA0142.1;0.539054,MA0143.1;0.528811,MA0144.1;0.365426,MA0145.1;0.153118,MA0146.1;6.22425e-05,MA0147.1;0.00211653,MA0148.1;0.223404,MA0149.1;0.020351,MA0062.2;0.0010454,MA0035.2;10.2836,MA0039.2;7.11032e-07,MA0138.2;0.198213,MA0002.2;2.55839,MA0137.2;1.06536,MA0104.2;0.0084096,MA0047.2;0.453951,MA0112.2;0.121587,MA0065.2;0.0289731,MA0150.1;1.61962,MA0151.1;0,MA0152.1;0.167214,MA0153.1;0.42322,MA0154.1;0.000313731,MA0155.1;0.00234742,MA0156.1;0.339773,MA0157.1;0.10381,MA0158.1;0,MA0159.1;0.0357335,MA0160.1;0.414337,MA0161.1;0,MA0162.1;3.20115e-09,MA0163.1;7.05744e-09,MA0164.1;2.00764,MA0080.2;1.14736,MA0018.2;1.05889,MA0099.2;0.167681,MA0079.2;0,MA0102.2;0.435909,MA0258.1;0.432459,MA0259.1;0.00266877,MA0442.1;0
}}
}}

Revision as of 18:34, 22 January 2013


Full id: C167_Basophils_Mast_Eosinophils_Neutrophils_Peripheral_Whole_CD4



Phase1 CAGE Peaks

Hg19::chr10:124304122..124304160,-p@chr10:124304122..124304160
-
Hg19::chr11:128186999..128187003,+p@chr11:128186999..128187003
+
Hg19::chr11:128199304..128199313,+p@chr11:128199304..128199313
+
Hg19::chr11:128215284..128215295,-p@chr11:128215284..128215295
-
Hg19::chr11:2961841..2961848,-p@chr11:2961841..2961848
-
Hg19::chr11:63258372..63258390,-p4@HRASLS5
Hg19::chr11:63259219..63259240,-p@chr11:63259219..63259240
-
Hg19::chr11:78036624..78036637,-p@chr11:78036624..78036637
-
Hg19::chr12:106663026..106663062,-p@chr12:106663026..106663062
-
Hg19::chr12:12537737..12537747,+p@chr12:12537737..12537747
+
Hg19::chr12:12592823..12592837,+p@chr12:12592823..12592837
+
Hg19::chr12:89588335..89588344,-p@chr12:89588335..89588344
-
Hg19::chr12:90154633..90154644,-p@chr12:90154633..90154644
-
Hg19::chr12:93963739..93963750,+p21@SOCS2
Hg19::chr12:93963755..93963796,+p7@SOCS2
Hg19::chr12:93963797..93963817,+p19@SOCS2
Hg19::chr12:93963818..93963840,+p18@SOCS2
Hg19::chr13:100009628..100009669,-p@chr13:100009628..100009669
-
Hg19::chr13:100009793..100009819,+p@chr13:100009793..100009819
+
Hg19::chr13:49200434..49200436,+p@chr13:49200434..49200436
+
Hg19::chr13:74039989..74040003,+p@chr13:74039989..74040003
+
Hg19::chr14:52352999..52353029,+p@chr14:52352999..52353029
+
Hg19::chr14:68086379..68086391,-p@chr14:68086379..68086391
-
Hg19::chr14:75744139..75744151,+p@chr14:75744139..75744151
+
Hg19::chr14:88462759..88462764,+p@chr14:88462759..88462764
+
Hg19::chr14:88468930..88468934,-p@chr14:88468930..88468934
-
Hg19::chr15:26341798..26341807,-p@chr15:26341798..26341807
-
Hg19::chr15:45341008..45341013,-p@chr15:45341008..45341013
-
Hg19::chr15:50645983..50645999,+p10@LOC100129387
Hg19::chr16:17685400..17685426,+p@chr16:17685400..17685426
+
Hg19::chr16:57723752..57723769,-p@chr16:57723752..57723769
-
Hg19::chr16:57729090..57729104,-p@chr16:57729090..57729104
-
Hg19::chr17:16342793..16342811,-p@chr17:16342793..16342811
-
Hg19::chr17:504754..504779,-p@chr17:504754..504779
-
Hg19::chr17:505873..505879,-p@chr17:505873..505879
-
Hg19::chr17:505892..505911,-p@chr17:505892..505911
-
Hg19::chr17:505912..505925,-p@chr17:505912..505925
-
Hg19::chr17:62101666..62101672,-p@chr17:62101666..62101672
-
Hg19::chr18:22040594..22040616,+p1@HRH4
Hg19::chr18:22040620..22040632,+p2@HRH4
Hg19::chr18:61557781..61557801,+p4@SERPINB2
Hg19::chr18:61557821..61557826,+p17@SERPINB2
Hg19::chr19:14117257..14117271,+p@chr19:14117257..14117271
+
Hg19::chr19:14467251..14467255,-p@chr19:14467251..14467255
-
Hg19::chr19:14895741..14895749,+p@chr19:14895741..14895749
+
Hg19::chr19:39890344..39890356,+p@chr19:39890344..39890356
+
Hg19::chr19:55850184..55850195,-p@chr19:55850184..55850195
-
Hg19::chr1:110438839..110438854,+p3@BC015716
Hg19::chr1:110438858..110438873,+p2@BC015716
Hg19::chr1:110453244..110453259,-p@chr1:110453244..110453259
-
Hg19::chr1:112016712..112016740,+p4@C1orf162
Hg19::chr1:154720840..154720844,-p@chr1:154720840..154720844
-
Hg19::chr1:212101868..212101870,+p@chr1:212101868..212101870
+
Hg19::chr1:247712219..247712230,+p5@C1orf150
Hg19::chr1:33608427..33608437,-p2@uc001bxa.1
Hg19::chr1:33608449..33608459,-p3@uc001bxa.1
Hg19::chr1:33608464..33608484,-p1@uc001bxa.1
Hg19::chr1:33608559..33608582,+p@chr1:33608559..33608582
+
Hg19::chr1:92021775..92021810,-p@chr1:92021775..92021810
-
Hg19::chr1:94181180..94181200,-p@chr1:94181180..94181200
-
Hg19::chr20:19213900..19213907,+p@chr20:19213900..19213907
+
Hg19::chr20:34384754..34384772,+p@chr20:34384754..34384772
+
Hg19::chr20:809889..809897,+p@chr20:809889..809897
+
Hg19::chr20:810482..810511,+p@chr20:810482..810511
+
Hg19::chr21:15957203..15957206,-p@chr21:15957203..15957206
-
Hg19::chr22:37297434..37297455,-p@chr22:37297434..37297455
-
Hg19::chr2:136971977..136971986,-p@chr2:136971977..136971986
-
Hg19::chr2:137080332..137080340,+p@chr2:137080332..137080340
+
Hg19::chr2:137085256..137085268,+p@chr2:137085256..137085268
+
Hg19::chr2:28148771..28148776,-p@chr2:28148771..28148776
-
Hg19::chr2:98547746..98547784,-p@chr2:98547746..98547784
-
Hg19::chr3:112693690..112693718,-p6@CD200R1
Hg19::chr3:112693763..112693777,-p4@CD200R1
Hg19::chr3:128134414..128134423,+p@chr3:128134414..128134423
+
Hg19::chr3:37187316..37187330,-p@chr3:37187316..37187330
-
Hg19::chr3:53158080..53158100,-p@chr3:53158080..53158100
-
Hg19::chr4:40200066..40200083,+p@chr4:40200066..40200083
+
Hg19::chr4:47465894..47465904,+p@chr4:47465894..47465904
+
Hg19::chr4:47475231..47475236,-p@chr4:47475231..47475236
-
Hg19::chr4:47475237..47475246,-p@chr4:47475237..47475246
-
Hg19::chr4:47477113..47477121,+p@chr4:47477113..47477121
+
Hg19::chr4:47477135..47477138,+p@chr4:47477135..47477138
+
Hg19::chr4:47487155..47487166,-p@chr4:47487155..47487166
-
Hg19::chr4:47487179..47487194,-p@chr4:47487179..47487194
-
Hg19::chr4:95479399..95479430,+p@chr4:95479399..95479430
+
Hg19::chr5:132002498..132002502,+p@chr5:132002498..132002502
+
Hg19::chr5:132010800..132010845,-p@chr5:132010800..132010845
-
Hg19::chr5:156968826..156968831,-p@chr5:156968826..156968831
-
Hg19::chr5:66188843..66188845,+p@chr5:66188843..66188845
+
Hg19::chr5:68604322..68604336,+p@chr5:68604322..68604336
+
Hg19::chr6:11393488..11393489,+p@chr6:11393488..11393489
+
Hg19::chr6:138098041..138098086,-p@chr6:138098041..138098086
-
Hg19::chr6:138098564..138098581,-p@chr6:138098564..138098581
-
Hg19::chr6:147199372..147199389,-p@chr6:147199372..147199389
-
Hg19::chr6:159084188..159084212,+p4@SYTL3
Hg19::chr6:159096538..159096554,+p@chr6:159096538..159096554
+
Hg19::chr7:128630152..128630186,-p@chr7:128630152..128630186
-
Hg19::chr7:139418745..139418759,-p@chr7:139418745..139418759
-
Hg19::chr7:139521206..139521224,-p@chr7:139521206..139521224
-
Hg19::chr8:17931071..17931076,-p@chr8:17931071..17931076
-
Hg19::chr8:38795967..38795993,-p@chr8:38795967..38795993
-
Hg19::chr8:6875818..6875822,-p1@DEFA1B
p1@DEFA1
p1@DEFA3
Hg19::chr9:128592282..128592285,-p@chr9:128592282..128592285
-
Hg19::chr9:5436322..5436331,+p@chr9:5436322..5436331
+


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:0005148prolactin receptor binding0.0113009310155961
GO:0008269JAK pathway signal transduction adaptor activity0.0113009310155961
GO:0006916anti-apoptosis0.0113009310155961
GO:0008268receptor signaling protein tyrosine kinase signaling protein activity0.0113009310155961
GO:0043066negative regulation of apoptosis0.0113009310155961
GO:0043069negative regulation of programmed cell death0.0113009310155961
GO:0005131growth hormone receptor binding0.0113009310155961
GO:0008243plasminogen activator activity0.0123594836833995
GO:0005159insulin-like growth factor receptor binding0.0237179872861387
GO:0004969histamine receptor activity0.0237179872861387
GO:0042981regulation of apoptosis0.0384017062255695
GO:0043067regulation of programmed cell death0.0384017062255695
GO:0017137Rab GTPase binding0.0410050751701897



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
blood1.85e-1215
haemolymphatic fluid1.85e-1215
organism substance1.85e-1215
hematopoietic system4.53e-0798
blood island4.53e-0798


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)
MA0003.11.1982e-10
MA0004.10.181519
MA0006.10.0090782
MA0007.10.61306
MA0009.10.303189
MA0014.11.11576e-08
MA0017.11.19728
MA0019.10.0520359
MA0024.10.0527495
MA0025.10.469198
MA0027.11.4258
MA0028.10.0124654
MA0029.11.23077
MA0030.10.77915
MA0031.10.614501
MA0038.10.216182
MA0040.11.25232
MA0041.10.544248
MA0042.11.14162
MA0043.12.77125
MA0046.11.01957
MA0048.10.108903
MA0050.11.45418
MA0051.12.34114
MA0052.10.484532
MA0055.10.000661905
MA0056.10
MA0057.10.00406869
MA0058.10.126207
MA0059.10.0277227
MA0060.10.0187156
MA0061.10.139839
MA0063.10
MA0066.10.101569
MA0067.10.738836
MA0068.10.0867112
MA0069.10.0845247
MA0070.10.0801129
MA0071.11.6601
MA0072.12.58874
MA0073.16.06579e-07
MA0074.10.0330999
MA0076.10.0356234
MA0077.10.554384
MA0078.10.382669
MA0081.10.21325
MA0083.10.0936761
MA0084.10.406292
MA0087.10.956044
MA0088.10.00837569
MA0089.10
MA0090.10.0946187
MA0091.10.489781
MA0092.10.760001
MA0093.10.103143
MA0095.10
MA0098.10
MA0100.10.112981
MA0101.10.18107
MA0103.10.14819
MA0105.10.00417429
MA0106.10.0503662
MA0107.10.101342
MA0108.20.144366
MA0109.10
MA0111.10.110018
MA0113.10.801827
MA0114.10.320913
MA0115.12.5681
MA0116.10.0328218
MA0117.10.705725
MA0119.10.782213
MA0122.10.37857
MA0124.10.561358
MA0125.10.4453
MA0130.10
MA0131.10.218941
MA0132.10
MA0133.10
MA0135.10.103592
MA0136.10.625608
MA0139.10.000230155
MA0140.12.90878
MA0141.10.209076
MA0142.10.539054
MA0143.10.528811
MA0144.10.365426
MA0145.10.153118
MA0146.16.22425e-05
MA0147.10.00211653
MA0148.10.223404
MA0149.10.020351
MA0062.20.0010454
MA0035.210.2836
MA0039.27.11032e-07
MA0138.20.198213
MA0002.22.55839
MA0137.21.06536
MA0104.20.0084096
MA0047.20.453951
MA0112.20.121587
MA0065.20.0289731
MA0150.11.61962
MA0151.10
MA0152.10.167214
MA0153.10.42322
MA0154.10.000313731
MA0155.10.00234742
MA0156.10.339773
MA0157.10.10381
MA0158.10
MA0159.10.0357335
MA0160.10.414337
MA0161.10
MA0162.13.20115e-09
MA0163.17.05744e-09
MA0164.12.00764
MA0080.21.14736
MA0018.21.05889
MA0099.20.167681
MA0079.20
MA0102.20.435909
MA0258.10.432459
MA0259.10.00266877
MA0442.10



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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CEBPB#1051292.222723857201152.21817983309706e-050.000485567980693407
EP300#2033261.69348543155580.004206315487065380.0200265947827143
GATA1#2623364.693952819007841.19822692849827e-152.23866944875547e-13
GATA2#2624364.411707138537928.00898944190608e-151.39176513864098e-12
JUN#3725172.045366310285750.003623498553841480.0183385620015822
JUND#3727312.084947905750023.69567186075763e-050.000713838123665001
MAFK#7975123.127007669749610.0004684699418933460.00430161176906973
SIRT6#5154845.909169384231730.004908273026473360.0229655986117043
SMARCA4#6597710.55155118418485.24012715884766e-060.000160349733472866
STAT2#677363.76521756844850.005462479512746730.0247471434447472
TAL1#6886195.45676650837851.78593193880806e-091.55304700880246e-07



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

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