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Items: 1 to 20 of 79

1.

Discovery of large genomic inversions using long range information.

Eslami Rasekh M, Chiatante G, Miroballo M, Tang J, Ventura M, Amemiya CT, Eichler EE, Antonacci F, Alkan C.

BMC Genomics. 2017 Jan 10;18(1):65. doi: 10.1186/s12864-016-3444-1.

2.

Inter-varietal structural variation in grapevine genomes.

Cardone MF, D'Addabbo P, Alkan C, Bergamini C, Catacchio CR, Anaclerio F, Chiatante G, Marra A, Giannuzzi G, Perniola R, Ventura M, Antonacci D.

Plant J. 2016 Nov;88(4):648-661. doi: 10.1111/tpj.13274.

PMID:
27419916
3.

On genomic repeats and reproducibility.

Firtina C, Alkan C.

Bioinformatics. 2016 Aug 1;32(15):2243-7. doi: 10.1093/bioinformatics/btw139.

PMID:
27153582
4.

Sandfly-Borne Phlebovirus Isolations from Turkey: New Insight into the Sandfly fever Sicilian and Sandfly fever Naples Species.

Alkan C, Erisoz Kasap O, Alten B, de Lamballerie X, Charrel RN.

PLoS Negl Trop Dis. 2016 Mar 23;10(3):e0004519. doi: 10.1371/journal.pntd.0004519.

5.

Demographically-Based Evaluation of Genomic Regions under Selection in Domestic Dogs.

Freedman AH, Schweizer RM, Ortega-Del Vecchyo D, Han E, Davis BW, Gronau I, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Marques-Bonet T, Ostrander EA, Wayne RK, Novembre J.

PLoS Genet. 2016 Mar 4;12(3):e1005851. doi: 10.1371/journal.pgen.1005851.

6.

Thermal energy storage characteristics of micro-nanoencapsulated heneicosane and octacosane with poly(methylmethacrylate) shell.

Sarı A, Alkan C, Biçer A.

J Microencapsul. 2016 May;33(3):221-8. doi: 10.3109/02652048.2016.1144820.

PMID:
26892748
7.

Isolation, full genomic characterization and neutralization-based human seroprevalence of Medjerda Valley virus, a novel sandfly-borne phlebovirus belonging to the Salehabad virus complex in northern Tunisia.

Bichaud L, Dachraoui K, Alwassouf S, Alkan C, Mensi M, Piorkowski G, Sakhria S, Seston M, Fares W, De Lamballerie X, Zhioua E, Charrel RN.

J Gen Virol. 2016 Mar;97(3):602-10. doi: 10.1099/jgv.0.000389.

PMID:
26704069
8.

Optimal seed solver: optimizing seed selection in read mapping.

Xin H, Nahar S, Zhu R, Emmons J, Pekhimenko G, Kingsford C, Alkan C, Mutlu O.

Bioinformatics. 2016 Jun 1;32(11):1632-42. doi: 10.1093/bioinformatics/btv670.

PMID:
26568624
9.

Determining the origin of synchronous multifocal bladder cancer by exome sequencing.

Acar Ö, Özkurt E, Demir G, Saraç H, Alkan C, Esen T, Somel M, Lack NA.

BMC Cancer. 2015 Nov 9;15:871. doi: 10.1186/s12885-015-1859-8.

10.

An integrated map of structural variation in 2,504 human genomes.

Sudmant PH, Rausch T, Gardner EJ, Handsaker RE, Abyzov A, Huddleston J, Zhang Y, Ye K, Jun G, Hsi-Yang Fritz M, Konkel MK, Malhotra A, Stütz AM, Shi X, Paolo Casale F, Chen J, Hormozdiari F, Dayama G, Chen K, Malig M, Chaisson MJ, Walter K, Meiers S, Kashin S, Garrison E, Auton A, Lam HY, Jasmine Mu X, Alkan C, Antaki D, Bae T, Cerveira E, Chines P, Chong Z, Clarke L, Dal E, Ding L, Emery S, Fan X, Gujral M, Kahveci F, Kidd JM, Kong Y, Lameijer EW, McCarthy S, Flicek P, Gibbs RA, Marth G, Mason CE, Menelaou A, Muzny DM, Nelson BJ, Noor A, Parrish NF, Pendleton M, Quitadamo A, Raeder B, Schadt EE, Romanovitch M, Schlattl A, Sebra R, Shabalin AA, Untergasser A, Walker JA, Wang M, Yu F, Zhang C, Zhang J, Zheng-Bradley X, Zhou W, Zichner T, Sebat J, Batzer MA, McCarroll SA; 1000 Genomes Project Consortium., Mills RE, Gerstein MB, Bashir A, Stegle O, Devine SE, Lee C, Eichler EE, Korbel JO.

Nature. 2015 Oct 1;526(7571):75-81. doi: 10.1038/nature15394.

11.

Robustness of Massively Parallel Sequencing Platforms.

Kavak P, Yüksel B, Aksu S, Kulekci MO, Güngör T, Hach F, Şahinalp SC; Turkish Human Genome Project., Alkan C, Sağıroğlu MŞ.

PLoS One. 2015 Sep 18;10(9):e0138259. doi: 10.1371/journal.pone.0138259.

12.

Ecuador Paraiso Escondido Virus, a New Flavivirus Isolated from New World Sand Flies in Ecuador, Is the First Representative of a Novel Clade in the Genus Flavivirus.

Alkan C, Zapata S, Bichaud L, Moureau G, Lemey P, Firth AE, Gritsun TS, Gould EA, de Lamballerie X, Depaquit J, Charrel RN.

J Virol. 2015 Dec;89(23):11773-85. doi: 10.1128/JVI.01543-15.

13.

Virus isolation, genetic characterization and seroprevalence of Toscana virus in Algeria.

Alkan C, Allal-Ikhlef AB, Alwassouf S, Baklouti A, Piorkowski G, de Lamballerie X, Izri A, Charrel RN.

Clin Microbiol Infect. 2015 Nov;21(11):1040.e1-9. doi: 10.1016/j.cmi.2015.07.012.

14.

Isolation, genetic characterization, and seroprevalence of Adana virus, a novel phlebovirus belonging to the Salehabad virus complex, in Turkey.

Alkan C, Alwassouf S, Piorkowski G, Bichaud L, Tezcan S, Dincer E, Ergunay K, Ozbel Y, Alten B, de Lamballerie X, Charrel RN.

J Virol. 2015 Apr;89(8):4080-91. doi: 10.1128/JVI.03027-14.

15.

Activating mutations of STAT5B and STAT3 in lymphomas derived from γδ-T or NK cells.

Küçük C, Jiang B, Hu X, Zhang W, Chan JK, Xiao W, Lack N, Alkan C, Williams JC, Avery KN, Kavak P, Scuto A, Sen E, Gaulard P, Staudt L, Iqbal J, Zhang W, Cornish A, Gong Q, Yang Q, Sun H, d'Amore F, Leppä S, Liu W, Fu K, de Leval L, McKeithan T, Chan WC.

Nat Commun. 2015 Jan 14;6:6025. doi: 10.1038/ncomms7025.

PMID:
25586472
16.

Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping.

Xin H, Greth J, Emmons J, Pekhimenko G, Kingsford C, Alkan C, Mutlu O.

Bioinformatics. 2015 May 15;31(10):1553-60. doi: 10.1093/bioinformatics/btu856.

17.

Fast and accurate mapping of Complete Genomics reads.

Lee D, Hormozdiari F, Xin H, Hach F, Mutlu O, Alkan C.

Methods. 2015 Jun;79-80:3-10. doi: 10.1016/j.ymeth.2014.10.012.

18.

Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication.

Montague MJ, Li G, Gandolfi B, Khan R, Aken BL, Searle SM, Minx P, Hillier LW, Koboldt DC, Davis BW, Driscoll CA, Barr CS, Blackistone K, Quilez J, Lorente-Galdos B, Marques-Bonet T, Alkan C, Thomas GW, Hahn MW, Menotti-Raymond M, O'Brien SJ, Wilson RK, Lyons LA, Murphy WJ, Warren WC.

Proc Natl Acad Sci U S A. 2014 Dec 2;111(48):17230-5. doi: 10.1073/pnas.1410083111.

19.

Whole genome sequencing of Turkish genomes reveals functional private alleles and impact of genetic interactions with Europe, Asia and Africa.

Alkan C, Kavak P, Somel M, Gokcumen O, Ugurlu S, Saygi C, Dal E, Bugra K, Güngör T, Sahinalp SC, Özören N, Bekpen C.

BMC Genomics. 2014 Nov 7;15:963. doi: 10.1186/1471-2164-15-963.

20.

Presence of sandfly-borne phleboviruses of two antigenic complexes (Sandfly fever Naples virus and Sandfly fever Sicilian virus) in two different bio-geographical regions of Tunisia demonstrated by a microneutralisation-based seroprevalence study in dogs.

Sakhria S, Alwassouf S, Fares W, Bichaud L, Dachraoui K, Alkan C, Zoghlami Z, de Lamballerie X, Zhioua E, Charrel RN.

Parasit Vectors. 2014 Oct 12;7:476. doi: 10.1186/s13071-014-0476-8.

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