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Am
J Hum Genet. 2013 Oct 3;93(4):687-96. doi:
10.1016/j.ajhg.2013.09.002.
PMID:
24094745 Free PMC article.
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Integrative
annotation of variants from 1092 humans: application to cancer
genomics.
Khurana
E, Fu Y, Colonna V, Mu XJ, Kang HM, Lappalainen T, Sboner A,
Lochovsky L, Chen J, Harmanci A, Das J, Abyzov A, Balasubramanian
S, Beal K, Chakravarty D, Challis D, Chen Y, Clarke D, Clarke L,
Cunningham F, Evani US, Flicek P, Fragoza R, Garrison E, Gibbs R,
Gümüş ZH, Herrero J, Kitabayashi N, Kong Y, Lage K, Liluashvili
V, Lipkin SM, MacArthur DG, Marth G, Muzny D, Pers TH, Ritchie
GRS, Rosenfeld JA, Sisu C, Wei X, Wilson M, Xue Y, Yu F; 1000
Genomes Project Consortium, Dermitzakis ET, Yu H, Rubin MA,
Tyler-Smith C, Gerstein M.
Science.
2013 Oct 4;342(6154):1235587. doi: 10.1126/science.1235587.
PMID:
24092746 Free PMC article.
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Association
study of common genetic variants and HIV-1 acquisition in 6,300
infected cases and 7,200 controls.
McLaren
PJ, Coulonges C, Ripke S, van den Berg L, Buchbinder S, Carrington
M, Cossarizza A, Dalmau J, Deeks SG, Delaneau O, De Luca A,
Goedert JJ, Haas D, Herbeck JT, Kathiresan S, Kirk GD, Lambotte O,
Luo M, Mallal S, van Manen D, Martinez-Picado J, Meyer L, Miro JM,
Mullins JI, Obel N, O'Brien SJ, Pereyra F, Plummer FA, Poli G, Qi
Y, Rucart P, Sandhu MS, Shea PR, Schuitemaker H, Theodorou I,
Vannberg F, Veldink J, Walker BD, Weintrob A, Winkler CA, Wolinsky
S, Telenti A, Goldstein DB, de Bakker PI, Zagury JF, Fellay J.
PLoS
Pathog. 2013;9(7):e1003515. doi: 10.1371/journal.ppat.1003515.
Epub 2013 Jul 25.
PMID:
23935489 Free PMC article.
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Improved
whole-chromosome phasing for disease and population genetic
studies.
Delaneau
O, Zagury JF, Marchini J.
Nat
Methods. 2013 Jan;10(1):5-6. doi: 10.1038/nmeth.2307.
PMID:
23269371 No abstract available.
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A
genome-wide association study in Caucasian women points out a
putative role of the STXBP5L gene in facial photoaging.
Le
Clerc S, Taing L, Ezzedine K, Latreille J, Delaneau O, Labib T,
Coulonges C, Bernard A, Melak S, Carpentier W, Malvy D, Jdid R,
Galan P, Hercberg S, Morizot F, Guinot C, Tschachler E, Zagury JF.
J
Invest Dermatol. 2013 Apr;133(4):929-35. doi:
10.1038/jid.2012.458. Epub 2012 Dec 6.
PMID:
23223146
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An
integrated map of genetic variation from 1,092 human genomes.
1000
Genomes Project Consortium, Abecasis GR, Auton A, Brooks LD,
DePristo MA, Durbin RM, Handsaker RE, Kang HM, Marth GT, McVean
GA.
Nature.
2012 Nov 1;491(7422):56-65. doi: 10.1038/nature11632.
PMID:
23128226 Free PMC article.
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Haplotype
inference.
Delaneau
O, Zagury JF.
Methods
Mol Biol. 2012;888:177-96. doi: 10.1007/978-1-61779-870-2_11.
PMID:
22665282
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Multicohort
genomewide association study reveals a new signal of protection
against HIV-1 acquisition.
Limou
S, Delaneau O, van Manen D, An P, Sezgin E, Le Clerc S, Coulonges
C, Troyer JL, Veldink JH, van den Berg LH, Spadoni JL, Taing L,
Labib T, Montes M, Delfraissy JF, Schachter F, O'Brien SJ,
Buchbinder S, van Natta ML, Jabs DA, Froguel P, Schuitemaker H,
Winkler CA, Zagury JF.
J
Infect Dis. 2012 Apr 1;205(7):1155-62. doi: 10.1093/infdis/jis028.
Epub 2012 Feb 23.
PMID:
22362864 Free PMC article.
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A
linear complexity phasing method for thousands of genomes.
Delaneau
O, Marchini J, Zagury JF.
Nat
Methods. 2011 Dec 4;9(2):179-81. doi: 10.1038/nmeth.1785.
PMID:
22138821
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Genome-wide
association scan in HIV-1-infected individuals identifying
variants influencing disease course.
van
Manen D, Delaneau O, Kootstra NA, Boeser-Nunnink BD, Limou S, Bol
SM, Burger JA, Zwinderman AH, Moerland PD, van 't Slot R, Zagury
JF, van 't Wout AB, Schuitemaker H.
PLoS
One. 2011;6(7):e22208. doi: 10.1371/journal.pone.0022208. Epub
2011 Jul 21.
PMID:
21811574 Free PMC article.
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CD39/adenosine
pathway is involved in AIDS progression.
Nikolova
M, Carriere M, Jenabian MA, Limou S, Younas M, Kök A, Huë S,
Seddiki N, Hulin A, Delaneau O, Schuitemaker H, Herbeck JT,
Mullins JI, Muhtarova M, Bensussan A, Zagury JF, Lelievre JD, Lévy
Y.
PLoS
Pathog. 2011 Jul;7(7):e1002110. doi: 10.1371/journal.ppat.1002110.
Epub 2011 Jul 7.
PMID:
21750674 Free PMC article.
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Genome-wide
association study implicates PARD3B-based AIDS restriction.
Troyer
JL, Nelson GW, Lautenberger JA, Chinn L, McIntosh C, Johnson RC,
Sezgin E, Kessing B, Malasky M, Hendrickson SL, Li G, Pontius J,
Tang M, An P, Winkler CA, Limou S, Le Clerc S, Delaneau O, Zagury
JF, Schuitemaker H, van Manen D, Bream JH, Gomperts ED, Buchbinder
S, Goedert JJ, Kirk GD, O'Brien SJ.
J
Infect Dis. 2011 May 15;203(10):1491-502. doi:
10.1093/infdis/jir046.
PMID:
21502085 Free PMC article.
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Screening
low-frequency SNPS from genome-wide association study reveals a
new risk allele for progression to AIDS.
Le
Clerc S, Coulonges C, Delaneau O, Van Manen D, Herbeck JT, Limou
S, An P, Martinson JJ, Spadoni JL, Therwath A, Veldink JH, van den
Berg LH, Taing L, Labib T, Mellak S, Montes M, Delfraissy JF,
Schächter F, Winkler C, Froguel P, Mullins JI, Schuitemaker H,
Zagury JF.
J
Acquir Immune Defic Syndr. 2011 Mar 1;56(3):279-84. doi:
10.1097/QAI.0b013e318204982b.
PMID:
21107268 Free PMC article.
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Multiple-cohort
genetic association study reveals CXCR6 as a new chemokine
receptor involved in long-term nonprogression to AIDS.
Limou
S, Coulonges C, Herbeck JT, van Manen D, An P, Le Clerc S,
Delaneau O, Diop G, Taing L, Montes M, van't Wout AB, Gottlieb GS,
Therwath A, Rouzioux C, Delfraissy JF, Lelièvre JD, Lévy Y,
Hercberg S, Dina C, Phair J, Donfield S, Goedert JJ, Buchbinder S,
Estaquier J, Schächter F, Gut I, Froguel P, Mullins JI,
Schuitemaker H, Winkler C, Zagury JF.
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Infect Dis. 2010 Sep 15;202(6):908-15. doi: 10.1086/655782.
PMID:
20704485 Free PMC article.
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Genomewide
association study of a rapid progression cohort identifies new
susceptibility alleles for AIDS (ANRS Genomewide Association Study
03).
Le
Clerc S, Limou S, Coulonges C, Carpentier W, Dina C, Taing L,
Delaneau O, Labib T, Sladek R; ANRS Genomic Group, Deveau C,
Guillemain H, Ratsimandresy R, Montes M, Spadoni JL, Therwath A,
Schächter F, Matsuda F, Gut I, Lelièvre JD, Lévy Y, Froguel P,
Delfraissy JF, Hercberg S, Zagury JF.
J
Infect Dis. 2009 Oct 15;200(8):1194-201. doi: 10.1086/605892.
PMID:
19754311
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Genomewide
association study of an AIDS-nonprogression cohort emphasizes the
role played by HLA genes (ANRS Genomewide Association Study 02).
Limou
S, Le Clerc S, Coulonges C, Carpentier W, Dina C, Delaneau O,
Labib T, Taing L, Sladek R, Deveau C, Ratsimandresy R, Montes M,
Spadoni JL, Lelièvre JD, Lévy Y, Therwath A, Schächter F,
Matsuda F, Gut I, Froguel P, Delfraissy JF, Hercberg S, Zagury JF;
ANRS Genomic Group.
J
Infect Dis. 2009 Feb 1;199(3):419-26. doi: 10.1086/596067.
PMID:
19115949
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Shape-IT:
new rapid and accurate algorithm for haplotype inference.
Delaneau
O, Coulonges C, Zagury JF.
BMC
Bioinformatics. 2008 Dec 16;9:540. doi: 10.1186/1471-2105-9-540.
PMID:
19087329 Free PMC article.
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ISHAPE:
new rapid and accurate software for haplotyping.
Delaneau
O, Coulonges C, Boelle PY, Nelson G, Spadoni JL, Zagury JF.
BMC
Bioinformatics. 2007 Jun 15;8:205. doi: 10.1186/1471-2105-8-205.
PMID:
17573965 Free PMC article.
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Computation
of haplotypes on SNPs subsets: advantage of the "global
method".
Coulonges
C, Delaneau O, Girard M, Do H, Adkins R, Spadoni JL, Zagury JF.
BMC
Genet. 2006 Oct 26;7:50. doi: 10.1186/1471-2156-7-50.
PMID:
17067372 Free PMC article.
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