Coexpression cluster:C123

Full id: C123_CD19_Natural_CD8_CD4_CD14_Peripheral_Basophils

Phase1 CAGE Peaks

Hg19::chr10:12392687..12392699,-	p@chr10:12392687..12392699 -
Hg19::chr10:126432640..126432663,-	p4@FAM53B
Hg19::chr10:126432670..126432723,-	p3@FAM53B
Hg19::chr10:15139614..15139671,-	p1@C10orf111
Hg19::chr10:5727231..5727239,-	p1@AK126513
Hg19::chr11:113185382..113185393,+	p3@TTC12
Hg19::chr11:46639436..46639466,-	p2@HARBI1
Hg19::chr11:57509422..57509437,-	p@chr11:57509422..57509437 -
Hg19::chr11:58345505..58345516,-	p9@LPXN
Hg19::chr11:59437000..59437035,-	p5@PATL1
Hg19::chr11:62319223..62319248,-	p@chr11:62319223..62319248 -
Hg19::chr11:64052561..64052571,-	p12@BAD
Hg19::chr11:69065734..69065737,+	p@chr11:69065734..69065737 +
Hg19::chr12:106695911..106695928,+	p@chr12:106695911..106695928 +
Hg19::chr12:106695930..106695942,+	p@chr12:106695930..106695942 +
Hg19::chr12:106695946..106695967,+	p@chr12:106695946..106695967 +
Hg19::chr12:12510212..12510225,+	p6@LOH12CR1
Hg19::chr12:12510241..12510263,+	p4@LOH12CR1
Hg19::chr12:25538611..25538629,+	p@chr12:25538611..25538629 +
Hg19::chr12:25538639..25538657,+	p@chr12:25538639..25538657 +
Hg19::chr12:50135975..50135991,-	p@chr12:50135975..50135991 -
Hg19::chr12:65563183..65563201,-	p@chr12:65563183..65563201 -
Hg19::chr12:794806..794815,+	p@chr12:794806..794815 +
Hg19::chr13:28195482..28195491,-	p4@LNX2
Hg19::chr13:37575209..37575223,-	p@chr13:37575209..37575223 -
Hg19::chr13:52026813..52026829,-	p4@INTS6
Hg19::chr13:98087050..98087059,-	p@chr13:98087050..98087059 -
Hg19::chr14:52314077..52314088,-	p@chr14:52314077..52314088 -
Hg19::chr14:55518677..55518700,-	p@chr14:55518677..55518700 -
Hg19::chr14:55518707..55518734,-	p@chr14:55518707..55518734 -
Hg19::chr14:64971288..64971316,-	p2@ZBTB25
Hg19::chr14:64971346..64971357,-	p9@ZBTB25
Hg19::chr14:64971893..64971928,-	p8@ZBTB25
Hg19::chr14:75642741..75642766,+	p@chr14:75642741..75642766 +
Hg19::chr14:75642917..75642942,+	p@chr14:75642917..75642942 +
Hg19::chr14:90849734..90849772,+	p2@BC039305
Hg19::chr14:94547495..94547508,-	p2@DDX24
Hg19::chr15:50978554..50978560,+	p@chr15:50978554..50978560 +
Hg19::chr15:52471696..52471707,+	p@chr15:52471696..52471707 +
Hg19::chr15:72767490..72767526,-	p1@AK026340
Hg19::chr15:83478370..83478426,+	p1@WHAMM
Hg19::chr15:83478446..83478468,+	p2@WHAMM
Hg19::chr15:90809334..90809354,+	p7@NGRN
Hg19::chr16:2041391..2041393,+	p@chr16:2041391..2041393 +
Hg19::chr16:68298781..68298792,-	p@chr16:68298781..68298792 -
Hg19::chr17:38717290..38717301,+	p@chr17:38717290..38717301 +
Hg19::chr17:38717306..38717321,+	p@chr17:38717306..38717321 +
Hg19::chr17:41322948..41322969,-	p@chr17:41322948..41322969 -
Hg19::chr17:79819420..79819433,-	p@chr17:79819420..79819433 -
Hg19::chr17:80255928..80255943,-	p@chr17:80255928..80255943 -
Hg19::chr17:80255969..80255980,-	p@chr17:80255969..80255980 -
Hg19::chr18:11851018..11851036,+	p7@CHMP1B
Hg19::chr18:71815135..71815173,+	p@chr18:71815135..71815173 +
Hg19::chr19:10341278..10341304,+	p@chr19:10341278..10341304 +
Hg19::chr19:10347101..10347110,+	p@chr19:10347101..10347110 +
Hg19::chr19:10347111..10347120,+	p@chr19:10347111..10347120 +
Hg19::chr19:14486179..14486197,+	p@chr19:14486179..14486197 +
Hg19::chr19:37095638..37095647,-	p@chr19:37095638..37095647 -
Hg19::chr19:37095841..37095855,+	p2@ZNF382
Hg19::chr19:39881431..39881443,+	p@chr19:39881431..39881443 +
Hg19::chr19:40790530..40790546,+	p@chr19:40790530..40790546 +
Hg19::chr19:40790569..40790585,+	p@chr19:40790569..40790585 +
Hg19::chr1:112298075..112298090,-	p3@FAM212B
Hg19::chr1:115054310..115054326,+	p@chr1:115054310..115054326 +
Hg19::chr1:14029343..14029381,-	p@chr1:14029343..14029381 -
Hg19::chr1:14076759..14076771,+	p@chr1:14076759..14076771 +
Hg19::chr1:153606799..153606818,-	p8@S100A13
Hg19::chr1:156066892..156066941,-	p@chr1:156066892..156066941 -
Hg19::chr1:156067106..156067143,+	p1@AK123652
Hg19::chr1:171455154..171455177,-	p2@BC007549
Hg19::chr1:186344666..186344694,+	p4@C1orf27
Hg19::chr1:22109734..22109790,+	p@chr1:22109734..22109790 +
Hg19::chr1:2232091..2232125,+	p@chr1:2232091..2232125 +
Hg19::chr1:22352338..22352353,-	p@chr1:22352338..22352353 -
Hg19::chr1:228327553..228327587,-	p@chr1:228327553..228327587 -
Hg19::chr1:234744958..234745002,-	p8@IRF2BP2
Hg19::chr1:234745050..234745097,-	p1@IRF2BP2
Hg19::chr1:236959047..236959062,-	p@chr1:236959047..236959062 -
Hg19::chr20:23330784..23330836,+	p@chr20:23330784..23330836 +
Hg19::chr20:43992000..43992015,-	p@chr20:43992000..43992015 -
Hg19::chr20:5591145..5591173,+	p@chr20:5591145..5591173 +
Hg19::chr21:30398882..30398888,+	p@chr21:30398882..30398888 +
Hg19::chr21:43640357..43640399,-	p@chr21:43640357..43640399 -
Hg19::chr22:39097378..39097392,-	p10@JOSD1
Hg19::chr22:39097393..39097425,-	p7@JOSD1
Hg19::chr22:42336157..42336166,-	p8@CENPM
Hg19::chr22:42336209..42336228,-	p3@CENPM
Hg19::chr22:50629950..50629967,-	p@chr22:50629950..50629967 -
Hg19::chr2:113033704..113033722,-	p@chr2:113033704..113033722 -
Hg19::chr2:122406191..122406211,+	p@chr2:122406191..122406211 +
Hg19::chr2:201828138..201828160,+	p1@ENST00000332935
Hg19::chr2:202123105..202123116,-	p@chr2:202123105..202123116 -
Hg19::chr2:220144408..220144433,-	p@chr2:220144408..220144433 -
Hg19::chr2:232574974..232574995,-	p@chr2:232574974..232574995 -
Hg19::chr2:27435537..27435561,-	p7@SLC5A6
Hg19::chr2:27435611..27435624,-	p8@SLC5A6
Hg19::chr2:27435634..27435665,-	p6@SLC5A6
Hg19::chr2:86790191..86790209,+	p@chr2:86790191..86790209 +
Hg19::chr3:107810152..107810193,+	p@chr3:107810152..107810193 +
Hg19::chr3:13522103..13522125,-	p@chr3:13522103..13522125 -
Hg19::chr3:135914615..135914701,-	p3@MSL2
Hg19::chr3:14693622..14693632,-	p@chr3:14693622..14693632 -
Hg19::chr3:179041570..179041596,-	p@chr3:179041570..179041596 -
Hg19::chr3:179041606..179041620,-	p@chr3:179041606..179041620 -
Hg19::chr3:179041625..179041643,-	p@chr3:179041625..179041643 -
Hg19::chr3:23986876..23986885,+	p4@NR1D2
Hg19::chr3:71114290..71114305,+	p@chr3:71114290..71114305 +
Hg19::chr3:71115673..71115676,+	p@chr3:71115673..71115676 +
Hg19::chr4:149363856..149363872,+	p@chr4:149363856..149363872 +
Hg19::chr4:149364278..149364307,-	p@chr4:149364278..149364307 -
Hg19::chr4:26862558..26862576,+	p1@STIM2
Hg19::chr4:26863338..26863342,+	p@chr4:26863338..26863342 +
Hg19::chr4:76598867..76598882,+	p@chr4:76598867..76598882 +
Hg19::chr4:78783782..78783819,-	p@chr4:78783782..78783819 -
Hg19::chr5:179248528..179248568,-	p@chr5:179248528..179248568 -
Hg19::chr5:32312391..32312420,+	p@chr5:32312391..32312420 +
Hg19::chr5:34839130..34839157,-	p@chr5:34839130..34839157 -
Hg19::chr5:54603850..54603853,+	p5@SKIV2L2
Hg19::chr5:98265261..98265280,-	p@chr5:98265261..98265280 -
Hg19::chr6:109762344..109762356,-	p5@PPIL6
Hg19::chr6:119216251..119216300,-	p@chr6:119216251..119216300 -
Hg19::chr6:136610575..136610598,+	p@chr6:136610575..136610598 +
Hg19::chr6:159239993..159240009,+	p@chr6:159239993..159240009 +
Hg19::chr6:159290473..159290489,-	p@chr6:159290473..159290489 -
Hg19::chr6:159290503..159290512,-	p@chr6:159290503..159290512 -
Hg19::chr6:26285546..26285558,+	p@chr6:26285546..26285558 +
Hg19::chr6:28048860..28048889,-	p2@uc003nkf.2
Hg19::chr6:292408..292424,-	p@chr6:292408..292424 -
Hg19::chr6:32941036..32941050,-	p@chr6:32941036..32941050 -
Hg19::chr6:4021464..4021476,+	p6@PRPF4B
Hg19::chr6:7389966..7389993,-	p1@CAGE1
Hg19::chr6:87864744..87864763,+	p@chr6:87864744..87864763 +
Hg19::chr7:108209925..108209941,-	p2@THAP5
Hg19::chr7:130792816..130792827,-	p2@ENST00000423414
Hg19::chr7:140714541..140714552,+	p@chr7:140714541..140714552 +
Hg19::chr7:2550533..2550560,-	p@chr7:2550533..2550560 -
Hg19::chr7:35840534..35840564,-	p2@ENST00000424194
Hg19::chr8:104427080..104427102,+	p3@DCAF13
Hg19::chr8:81398511..81398523,+	p8@ZBTB10
Hg19::chr8:81398538..81398549,+	p14@ZBTB10
Hg19::chr8:81398552..81398563,+	p13@ZBTB10
Hg19::chr9:102583633..102583644,+	p8@NR4A3
Hg19::chr9:102669358..102669378,-	p1@LOC441461
Hg19::chr9:132769827..132769840,-	p@chr9:132769827..132769840 -
Hg19::chrX:110924483..110924500,+	p2@ALG13
Hg19::chrX:17755245..17755252,+	p6@SCML1

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0043231	intracellular membrane-bound organelle	0.0226705607721863
GO:0043227	membrane-bound organelle	0.0226705607721863
GO:0032235	negative regulation of calcium ion transport via store-operated calcium channel	0.0400800066572294
GO:0004577	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity	0.0400800066572294
GO:0016070	RNA metabolic process	0.0400800066572294
GO:0005634	nucleus	0.0460791453004554
GO:0032234	regulation of calcium ion transport via store-operated calcium channel	0.0460791453004554
GO:0008523	sodium-dependent multivitamin transmembrane transporter activity	0.0460791453004554
GO:0043169	cation binding	0.0495674418916741

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>

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Cell Type

Ontology term	p-value	n
leukocyte	1.18e-78	136
hematopoietic stem cell	2.21e-61	168
angioblastic mesenchymal cell	2.21e-61	168
hematopoietic lineage restricted progenitor cell	2.30e-60	120
nongranular leukocyte	1.44e-59	115
hematopoietic cell	7.42e-59	177
hematopoietic oligopotent progenitor cell	2.47e-53	161
hematopoietic multipotent progenitor cell	2.47e-53	161
lymphoid lineage restricted progenitor cell	1.93e-41	52
lymphocyte	1.95e-40	53
common lymphoid progenitor	1.95e-40	53
nucleate cell	1.53e-38	55
myeloid leukocyte	3.11e-25	72
classical monocyte	1.13e-24	42
CD14-positive, CD16-negative classical monocyte	1.13e-24	42
lymphocyte of B lineage	6.93e-23	24
pro-B cell	6.93e-23	24
granulocyte monocyte progenitor cell	8.83e-21	67
defensive cell	1.34e-20	48
phagocyte	1.34e-20	48
macrophage dendritic cell progenitor	1.11e-18	61
myeloid lineage restricted progenitor cell	4.52e-18	66
myeloid cell	1.25e-17	108
common myeloid progenitor	1.25e-17	108
mesenchymal cell	1.28e-17	354
mature alpha-beta T cell	7.13e-17	18
alpha-beta T cell	7.13e-17	18
immature T cell	7.13e-17	18
mature T cell	7.13e-17	18
immature alpha-beta T cell	7.13e-17	18
connective tissue cell	7.27e-17	361
intermediate monocyte	9.02e-17	9
CD14-positive, CD16-positive monocyte	9.02e-17	9
monopoietic cell	2.03e-16	59
monocyte	2.03e-16	59
monoblast	2.03e-16	59
promonocyte	2.03e-16	59
B cell	2.44e-15	14
T cell	9.71e-15	25
pro-T cell	9.71e-15	25
motile cell	3.18e-14	386
CD4-positive, alpha-beta T cell	2.60e-13	6
stem cell	8.46e-12	441
multi fate stem cell	4.84e-11	427
somatic stem cell	1.31e-10	433
granulocyte	5.53e-09	8
blood cell	2.74e-08	11
stuff accumulating cell	3.69e-08	87
CD8-positive, alpha-beta T cell	6.06e-08	11
natural killer cell	9.72e-08	3
pro-NK cell	9.72e-08	3
dendritic cell	9.83e-08	10
naive T cell	2.50e-07	3
basophil	3.19e-07	3
single nucleate cell	3.76e-07	3
mononuclear cell	3.76e-07	3
plasmacytoid dendritic cell	7.43e-07	3

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	2.32e-19	98
blood island	2.32e-19	98
bone marrow	1.23e-18	76
bone element	1.35e-16	82
hemolymphoid system	1.48e-16	108
connective tissue	7.71e-16	371
immune system	9.13e-16	93
skeletal element	2.59e-14	90
skeletal system	5.37e-12	100

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

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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

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

TF	#promoters	Enrichment	p-value	q-value
BATF#10538	14	2.33567962391953	0.00287868214064849	0.0155751273940417
BCL11A#53335	21	4.08053806284759	5.2511043391141e-08	3.34402491507766e-06
BCLAF1#9774	21	3.11442191652437	4.03512786888394e-06	0.000130230135815318
CCNT2#905	53	2.30012796971931	1.25938978273084e-09	1.14472941269475e-07
CEBPB#1051	38	2.07468225877632	7.83768942036453e-06	0.000222193389080741
CHD2#1106	31	2.19633361546317	2.27398166442848e-05	0.000496638166146478
CTCF#10664	39	1.43184930513648	0.0105297461935633	0.0389638663091538
CTCFL#140690	15	2.02874736564805	0.00742390114874945	0.0306593701638753
E2F1#1869	78	2.62175588192183	1.24781699294015e-18	2.87050129792238e-16
E2F4#1874	26	2.2559559465575	7.61611626945388e-05	0.00117543899374242
E2F6#1876	70	2.40548562478642	2.93846425287787e-14	4.87127409692558e-12
EBF1#1879	53	3.23316947169971	2.09625720323142e-15	3.82078544586887e-13
EGR1#1958	61	2.08410222454396	1.79297147894818e-09	1.55657646126242e-07
ELF1#1997	78	2.27487425196567	5.7152335289359e-15	1.001498782766e-12
ELK4#2005	18	2.00165938255085	0.00392836567939265	0.0191395121846468
EP300#2033	37	1.71668386212506	0.000566238794325466	0.00482951518501897
ETS1#2113	31	2.06569581224844	7.2766760312596e-05	0.00114298205448747
FOSL1#8061	10	2.72010819975158	0.00406689066479451	0.0194532378006996
FOXA1#3169	25	1.89750338174408	0.00138452414243646	0.00901204842081155
FOXA2#3170	14	2.36182529135146	0.00260563827690864	0.0144075739094696
GABPB1#2553	49	2.37203087652689	2.62131201059841e-09	2.20780004092651e-07
GATA1#2623	28	2.6006070412768	2.80000313384948e-06	9.68309693033463e-05
GATA2#2624	28	2.44423348314734	8.99674239533548e-06	0.000242167726553207
GTF2F1#2962	29	2.5304805851094	3.07508476512804e-06	0.0001036664873419
HEY1#23462	81	2.24143146912029	2.30184521165727e-15	4.17365298715753e-13
HMGN3#9324	45	2.5207852571971	2.37147513154205e-09	2.01853701110938e-07
IRF1#3659	35	1.83082692722422	0.000251252659422961	0.00270660923130218
IRF4#3662	17	2.55168983338802	0.000385821213947398	0.00377751774289418
JUND#3727	36	1.72471165689971	0.000630292374791622	0.00518323664022537
MAX#4149	49	2.16558369822842	5.16774763445849e-08	3.2969724813391e-06
MEF2A#4205	28	3.5945922292468	3.70005731333055e-09	3.04036416795381e-07
MEF2C#4208	12	3.39545379391431	0.000246999074182389	0.00268516043598777
MXI1#4601	36	2.45627793585846	2.95617199405092e-07	1.49510724884593e-05
MYC#4609	64	2.28921945056851	8.30237102636846e-12	1.0434312005089e-09
NFKB1#4790	73	2.74403171209692	3.19606815824649e-18	7.16296485792071e-16
NRF1#4899	21	1.75627307124609	0.00820966028297938	0.0324051819907813
PAX5#5079	65	2.96932712004492	1.57737195449797e-17	3.33480059829582e-15
PBX3#5090	24	3.60238564713602	5.45001790452392e-08	3.44757371248076e-06
POLR2A#5430	137	2.01507592594833	7.75923204418568e-35	3.78675904421826e-32
POU2F2#5452	57	3.55513062528304	1.37056967284061e-18	3.1390553960921e-16
REST#5978	31	2.04897869999979	8.45781696355461e-05	0.00126878188143735
RFX5#5993	21	1.73291868062395	0.0094798867354717	0.0357180955577737
SIN3A#25942	73	2.70444236340757	7.31809245138454e-18	1.59894196136015e-15
SIRT6#51548	5	5.26158917774058	0.00280844724656112	0.0153759395042775
SMARCA4#6597	6	6.44243438251595	0.000378075041201748	0.00374912449943689
SMARCB1#6598	34	4.25063244218734	5.64946383074129e-13	8.18341682411636e-11
SMARCC1#6599	11	3.28970515421881	0.000582587483543068	0.00488713688303249
SP1#6667	60	2.34180056635927	2.27376308152793e-11	2.71704282004228e-09
SPI1#6688	49	2.75350583505215	1.45592218163785e-11	1.78678092512427e-09
SREBF1#6720	8	2.57566298304045	0.0133042681519368	0.0470389810596203
SRF#6722	24	2.26802930337005	0.000138063097319009	0.00180397495569873
STAT1#6772	17	2.41104100994785	0.000727412394266363	0.00580191103137198
STAT2#6773	10	4.47012131413977	9.43409124546188e-05	0.0013678842920794
TAF1#6872	106	2.42714319376028	2.6236204766056e-26	8.83897738568427e-24
TAF7#6879	27	2.11433475296538	0.000159485318679143	0.00200005850114446
TBP#6908	86	2.18344026774171	5.6593692866756e-16	1.08850620429303e-13
TCF12#6938	36	2.62219682519665	5.88635663866183e-08	3.66586285620276e-06
TFAP2C#7022	26	1.92493112230388	0.000891359559984036	0.00663573320159475
USF1#7391	35	1.52501695001561	0.00614783141662526	0.0271800095382012
USF2#7392	23	2.04671602641507	0.000812831837715126	0.00619373590392018
YY1#7528	56	1.88373672597134	4.52099889052568e-07	2.14427158550232e-05
ZBTB7A#51341	48	2.41706607382221	2.21707365907216e-09	1.89638784504371e-07
ZEB1#6935	34	3.9329225246335	4.79674878610386e-12	6.27779005603886e-10
ZNF143#7702	19	1.75696338693377	0.0117950970702182	0.042973143895783
ZNF263#10127	55	3.09726910983279	3.03058766825208e-15	5.46652064740205e-13

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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