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Coexpression cluster:C512: Difference between revisions

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|full_id=C512_Mast_immature_Basophils_CD14_CD34_Peripheral_Natural
|full_id=C512_Mast_immature_Basophils_CD14_CD34_Peripheral_Natural
|id=C512
|id=C512
|ontology_enrichment_celltype=CL:0002057!8.86e-27!42;CL:0000766!1.12e-26!76;CL:0000860!1.92e-26!45;CL:0000557!1.30e-24!71;CL:0000839!5.20e-22!70;CL:0000763!5.99e-22!112;CL:0000049!5.99e-22!112;CL:0002009!1.67e-21!65;CL:0000738!1.88e-20!140;CL:0002194!3.01e-20!63;CL:0000576!3.01e-20!63;CL:0000040!3.01e-20!63;CL:0000559!3.01e-20!63;CL:0002320!4.54e-19!365;CL:0000134!1.45e-18!358;CL:0000037!6.08e-18!172;CL:0000566!6.08e-18!172;CL:0000048!3.98e-16!430;CL:0002032!4.27e-16!165;CL:0000837!4.27e-16!165;CL:0000219!2.90e-15!390;CL:0002031!3.16e-15!124;CL:0000723!3.64e-15!436;CL:0000988!4.17e-15!182;CL:0000034!7.41e-15!444;CL:0002087!2.17e-13!119;CL:0000063!1.42e-10!578;CL:0000003!1.87e-10!722;CL:0000012!2.96e-10!682;CL:0000548!3.18e-09!679;CL:0000004!3.18e-09!679;CL:0000255!3.18e-09!679;CL:0002371!3.48e-09!591;CL:0000144!1.53e-08!625;CL:0002393!3.61e-07!9;CL:0002397!3.61e-07!9
|ontology_enrichment_celltype=CL:0000860!2.03e-90!42;CL:0002057!2.03e-90!42;CL:0000473!1.49e-77!48;CL:0000234!1.49e-77!48;CL:0000557!2.82e-70!67;CL:0000766!7.16e-68!72;CL:0002009!4.41e-67!61;CL:0000839!1.39e-64!66;CL:0002194!1.50e-62!59;CL:0000576!1.50e-62!59;CL:0000040!1.50e-62!59;CL:0000559!1.50e-62!59;CL:0000738!2.44e-55!136;CL:0000763!1.79e-51!108;CL:0000049!1.79e-51!108;CL:0002031!1.97e-48!120;CL:0000037!9.42e-47!168;CL:0000566!9.42e-47!168;CL:0002087!3.70e-46!115;CL:0000988!1.59e-43!177;CL:0002032!3.53e-42!161;CL:0000837!3.53e-42!161;CL:0000325!1.84e-41!87;CL:0000134!4.00e-25!354;CL:0002320!2.81e-24!361;CL:0002393!3.03e-22!9;CL:0002397!3.03e-22!9;CL:0000219!2.70e-21!386;CL:0000034!4.04e-18!441;CL:0000048!1.19e-17!427;CL:0000723!3.78e-17!433;CL:0000767!4.91e-09!3;CL:0000623!2.78e-08!3;CL:0000825!2.78e-08!3;CL:0000226!3.64e-08!3;CL:0000842!3.64e-08!3;CL:0000875!3.91e-08!3;CL:0002396!3.91e-08!3;CL:0002371!1.21e-07!588
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!7.54e-24!102;UBERON:0003061!7.54e-24!102;UBERON:0002371!2.46e-23!80;UBERON:0001474!1.28e-22!86;UBERON:0002193!9.59e-21!112;UBERON:0004765!6.21e-19!101;UBERON:0001434!6.21e-19!101;UBERON:0002384!2.12e-18!375;UBERON:0002405!1.21e-13!115;UBERON:0003081!4.75e-13!216;UBERON:0002204!5.98e-11!167
|ontology_enrichment_uberon=UBERON:0002371!4.66e-66!76;UBERON:0001474!3.00e-60!82;UBERON:0002390!1.91e-55!98;UBERON:0003061!1.91e-55!98;UBERON:0004765!1.06e-53!90;UBERON:0002405!1.56e-51!93;UBERON:0002193!5.36e-49!108;UBERON:0001434!5.57e-47!100;UBERON:0003081!6.03e-27!203;UBERON:0002384!4.02e-23!371;UBERON:0002204!9.84e-23!167;UBERON:0000926!1.01e-12!315;UBERON:0004120!1.01e-12!315;UBERON:0006603!1.01e-12!315
|tf_chipseq_enrich=CEBPB#1051;9:3.98557381291241:0.000127963898248386:0.0017013903970927!EP300#2033;8:3.01064076721031:0.00244970224095202:0.0137899235887882!ESR1#2099;4:6.83746739914544:0.00236587093901702:0.0134054467773437!FOS#2353;8:3.99909124839751:0.000362139183329412:0.00361754702704356!FOSL1#8061;6:13.2378599054577:3.63408313806019e-06:0.000119352204042726!FOSL2#2355;5:4.70283350126714:0.00321390247115385:0.0168527770339327!GATA2#2624;11:7.78856939272744:1.30664820082503e-08:9.63736097782242e-07!JUN#3725;10:6.95157177352019:2.54111005088979e-07:1.32101041615171e-05!JUNB#3726;5:8.50295351661698:0.000222784783450368:0.0024821228929777!JUND#3727;7:2.7201470885054:0.00910157311098349:0.034441798403493!MAX#4149;7:2.50932714239166:0.0140739207604237:0.0493906656686121!MEF2A#4205;4:4.16516242436535:0.0135634616508561:0.0478808305341815!MEF2C#4208;4:9.1803009983609:0.000799338868733178:0.0061733455676717!NR3C1#2908;7:5.82284240656729:9.74743006618345e-05:0.00138618171116848!POLR2A#5430;14:1.67024135954517:0.0071650396642108:0.0297538599399806!SMARCA4#6597;3:26.1276505513147:0.000196672614182386:0.00236366986796251!SMARCC1#6599;5:12.1287109221199:4.19750190632436e-05:0.000760289458193913!SMARCC2#6601;3:15.6925624044829:0.000866310465423883:0.00646446118165225!SMC3#9126;5:4.17914801248135:0.00533909611976896:0.024529731640531!SPI1#6688;7:3.19057025331439:0.00372569755106236:0.0185758402890821
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64,0.082098,0.653196,0.724231,0.287381,0.08631,0.293154,0.225831,0.0193491,0.211715,0.828574,0.673785,0.153753,0.259762,0.110622,0.937727,0.182735,0.923711,0.437934,0.214645,0.308574,0.410976,0.543382,0.00074465,0.155576,0.837701,0.159801,0.991624,0.608154,0.211589,0.422522,0.287944,0.606778,0.257551,0.0617223,0.71767,0.20677,0.801736,0.00647042,0.868605,0.378155,0.678903,0.401036,0.0346871,0.913562,0.0728971,0.233067,0.300332,0.597186,0.428223,0.891694,0.331597,0.252299,0.121287,0.686195,0.574933,0.38344,0.500313,0.0100995,0.570699,0.267781,0.871698,0.0413392,0.13126,0.265077,0.318145,0.0815676,0.445667,0.0151751,0.187529,0.0790404,0.579412,0.904631,0.0141583,0.432018,0.871147,0.533106,0.0101116,0.691443,0.991456,0.299365,0.253653,0.575713,0.0554438,0.00020136,0.882952,0.358506,0.449059,0.611135,0.195384,0.0481941,0.00663313,0.692115,0.999939,0.403832,0.434406,8.1725e-05,0.0665363,0.498808,0.262149,0.453683,0.051717,0.375958,0.244499,0.503741,0.0717969,0.200859,0.631993,0.205881,0.0112921,0.241402,0.282895,0.165549,0.443105,0.67875,0.485849,0.0660744,0.297565,0.798461,0.0824695,0.868466,0.261254,0.373545,0.771789,0.474226,0.686443,0.315431,0.713033,0.0181654,0.321823,0.364017,0.25139,0.791638,0.638083,0.074761,0.439211,0.0544028,0.60743,0.624525,0.459217,0.268188,0.673757,0.0422469,0.587519,0.20476,0.518411,0.333843,0.177046,0.408856,0.91071,0.162942,0.511834,0.351591,0.684185,0.121209,0.84115,0.0959752,0.0642898,0.467764,0.26595,0.140888,0.513212,0.143867,0.302028,0.434597,0.280436,0.665825,0.714737,0.399122,0.0361602,0.271404,0.38865,0.144557,0.306133,0.818177,0.692392,0.771716,0.467462,0.820566,0.928694,0.197893,0.617603,0.206782,0.234019,0.577076,0.228205,0.300345,0.289077,0.820687,0.468414,0.00931324,0.0633169,0.302014,0.845379,0.692608,0.380253,0.584602,0.50425,0.956083,0.164765,0.00286014,0.0007081,0.254737,0.947635,0.0319885,0.217633,0.598241,0.00340201,0.286893,0.800149,0.983159,0.202699,0.0146024,0.516988,0.00092941,0.325947,0.0041847,0.526825,0.666342,0.151471,0.659102,0.0050926,0.603933,0.581817,0.352129,0.445714,0.000164968,0.534841,0.474026,0.235769,0.295549,0.180614,0.805514,0.0243899,0.2854,0.918537,0.742029,0.916254,0.844911,0.00246892,0.219371,0.900268,0.437665,0.913567,0.527131,0.0129001,0.738824,0.00299478,0.0666169,0.530828,0.845059,0.475853,0.0741873,0.638811,0.232695,0.0017056,0.454764,0.661017,0.488843,0.658198,0.000232422,0.53631,0.325073,0.0303575,0.0281331,0.699128,0.051765,0.800831,0.513167,0.000436839,0.441203,0.412834,0.313345,0.239823,0.497348,0.00333366,0.286257,0.635022,0.491386,0.192775,0.404931,0.00605664,0.0365288,0.897938,0.418542,0.0132929,0.699648,0.226444,0.507147,0.299375,0.381166,0.406909,0.665152,0.0471351,0.0300521,0.697834,0.0246632,0.0379547,0.00158832,0.292397,6.8056e-06,0.081363,0.752737,0.801152,0.744635,0.300672,0.156644,0.0107451,0.731561,0.305027,0.983903,0.178824,0.492829,0.000635125,0.644797,0.886042,0.58766,0.337497,0.42113,0.0983118,0.000220211,0.881367,0.923005,0.189284,0.0687597,0.731853,0.0406968,0.721099,0.801227,0.0728476,0.504613,0.0165618,0.555107,0.340442,0.590258,0.570581,0.145247,0.000876992,0.333247,0.100512,0.499125,0.710774,0.733511,0.661146,0.174268,0.0122766,0.0406631,0.168805,0.0864749,0.051451,0.324452,0.385297,0.133089,0.0134302,0.185981,0.716858,0.536372,0.713918,0.360982,0.116272,0.0231998,0.719738,0.656304,0.773807,0.753221,0.432404,0.451923,0.297317,0.825108,0.000191546,0.103997,0.406648,0.475485,0.332453,0.140834,0.776362,0.779908,0.918601,0.653221,0.433934,0.735119,0.00177125,0.546023,0.736808,0.180297,0.444418,0.189295,0.695747,0.0712649,0.859193,0.415306,0.01084,0.053947,0.818559,0.445111,0.341797,0.754074,0.118526,0.513289,0.243962,0.463276,0.654051,0.789875,0.670089,0.20985,0.336557,0.275056,0.00296213,0.290325,0.740991,0.26158,0.00381691,0.536216,0.463842,0.497844,0.308198,0.767657,0.00422954,0.775352,0.0434061,0.548777,0.270356,0.379539,0.335616,0.648411,0.265293,0.624798,0.183311,0.547862,0.125402,0.0085505,0.362671,0.83378,0.54332,0.0501047,0.763881,0.752371,0.600675,0.723852,0.00199364,0.0391361,0.450842,0.505205,0.680147,0.738704,0.594826,0.146875,0.808026,0.271939,0.569592,0.264579,0.0191624,0.678071,0.688781,0.457605,0.742029,0.65266,0.58825,0.185312,0.0155425,0.741891,0.147939,0.281488,0.282255,0.625848,0.385757,0.220774,0.282081,0.0306956,0.838076,0.172443,0.354484,0.0783337,5.21405e-05,0.398723,0.461844,0.328182,0.184057,0.326996,0.48466,0.337521,0.378673,0.56258,0.15359,0.0306472,0.340182,0.430665,0.201185,0.581027,0.746375,0.878019,0.601265,0.72428,0.233748,0.546704,0.830335,0.387159,0.458329,1.45259e-05,0.257156,0.00708055,0.323734,0.115636,0.571615,0.282931,0.749886,0.150592,0.0552811,0.0247318,0.0908675,0.522191,0.185105,0.781357,0.168024,0.0107067,0.363115,0.590036,0.322755,0.00856959,0.0954589,0.450043,0.445395,0.687533,0.0202807,0.0534531,0.453778,0.41671,0.898367,0.677018,0.645799,0.00343399,0.357633,0.124142,0.472167,0.779178,0.686837,0.641805,0.180642,0.0328,0.402522,0.504214
}}
}}

Revision as of 16:22, 19 October 2012


Full id: C512_Mast_immature_Basophils_CD14_CD34_Peripheral_Natural



Phase1 CAGE Peaks

Hg19::chr11:62321050..62321060,-p@chr11:62321050..62321060
-
Hg19::chr11:62321151..62321162,+p2@AF083120
Hg19::chr11:62321179..62321195,+p1@AF083120
Hg19::chr14:105947776..105947788,-p@chr14:105947776..105947788
-
Hg19::chr14:90379258..90379271,+p@chr14:90379258..90379271
+
Hg19::chr15:86124719..86124731,-p@chr15:86124719..86124731
-
Hg19::chr17:76320888..76320910,+p@chr17:76320888..76320910
+
Hg19::chr19:6065937..6065958,-p@chr19:6065937..6065958
-
Hg19::chr19:6067480..6067495,+p@chr19:6067480..6067495
+
Hg19::chr1:156095033..156095048,-p@chr1:156095033..156095048
-
Hg19::chr1:156095991..156096021,-p@chr1:156095991..156096021
-
Hg19::chr1:156096337..156096353,+p6@LMNA
Hg19::chr22:29707363..29707374,+p@chr22:29707363..29707374
+
Hg19::chr2:157188649..157188663,+p@chr2:157188649..157188663
+
Hg19::chr2:235244225..235244257,-p@chr2:235244225..235244257
-
Hg19::chr2:235244770..235244800,+p@chr2:235244770..235244800
+
Hg19::chr8:26467187..26467198,+p@chr8:26467187..26467198
+
Hg19::chr8:26467208..26467221,+p@chr8:26467208..26467221
+


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>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
classical monocyte2.03e-9042
CD14-positive, CD16-negative classical monocyte2.03e-9042
defensive cell1.49e-7748
phagocyte1.49e-7748
granulocyte monocyte progenitor cell2.82e-7067
myeloid leukocyte7.16e-6872
macrophage dendritic cell progenitor4.41e-6761
myeloid lineage restricted progenitor cell1.39e-6466
monopoietic cell1.50e-6259
monocyte1.50e-6259
monoblast1.50e-6259
promonocyte1.50e-6259
leukocyte2.44e-55136
myeloid cell1.79e-51108
common myeloid progenitor1.79e-51108
hematopoietic lineage restricted progenitor cell1.97e-48120
hematopoietic stem cell9.42e-47168
angioblastic mesenchymal cell9.42e-47168
nongranular leukocyte3.70e-46115
hematopoietic cell1.59e-43177
hematopoietic oligopotent progenitor cell3.53e-42161
hematopoietic multipotent progenitor cell3.53e-42161
stuff accumulating cell1.84e-4187
mesenchymal cell4.00e-25354
connective tissue cell2.81e-24361
intermediate monocyte3.03e-229
CD14-positive, CD16-positive monocyte3.03e-229
motile cell2.70e-21386
stem cell4.04e-18441
multi fate stem cell1.19e-17427
somatic stem cell3.78e-17433
basophil4.91e-093
natural killer cell2.78e-083
pro-NK cell2.78e-083
single nucleate cell3.64e-083
mononuclear cell3.64e-083
non-classical monocyte3.91e-083
CD14-low, CD16-positive monocyte3.91e-083
somatic cell1.21e-07588
Uber Anatomy
Ontology termp-valuen
bone marrow4.66e-6676
bone element3.00e-6082
hematopoietic system1.91e-5598
blood island1.91e-5598
skeletal element1.06e-5390
immune system1.56e-5193
hemolymphoid system5.36e-49108
skeletal system5.57e-47100
lateral plate mesoderm6.03e-27203
connective tissue4.02e-23371
musculoskeletal system9.84e-23167
mesoderm1.01e-12315
mesoderm-derived structure1.01e-12315
presumptive mesoderm1.01e-12315


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


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

TF#promotersEnrichmentp-valueq-value
CEBPB#105193.985573812912410.0001279638982483860.0017013903970927
EP300#203383.010640767210310.002449702240952020.0137899235887882
ESR1#209946.837467399145440.002365870939017020.0134054467773437
FOS#235383.999091248397510.0003621391833294120.00361754702704356
FOSL1#8061613.23785990545773.63408313806019e-060.000119352204042726
FOSL2#235554.702833501267140.003213902471153850.0168527770339327
GATA2#2624117.788569392727441.30664820082503e-089.63736097782242e-07
JUN#3725106.951571773520192.54111005088979e-071.32101041615171e-05
JUNB#372658.502953516616980.0002227847834503680.0024821228929777
JUND#372772.72014708850540.009101573110983490.034441798403493
MAX#414972.509327142391660.01407392076042370.0493906656686121
MEF2A#420544.165162424365350.01356346165085610.0478808305341815
MEF2C#420849.18030099836090.0007993388687331780.0061733455676717
NR3C1#290875.822842406567299.74743006618345e-050.00138618171116848
POLR2A#5430141.670241359545170.00716503966421080.0297538599399806
SMARCA4#6597326.12765055131470.0001966726141823860.00236366986796251
SMARCC1#6599512.12871092211994.19750190632436e-050.000760289458193913
SMARCC2#6601315.69256240448290.0008663104654238830.00646446118165225
SMC3#912654.179148012481350.005339096119768960.024529731640531
SPI1#668873.190570253314390.003725697551062360.0185758402890821



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.