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On genomic repeats and reproducibility.
Firtina C, Alkan C. Firtina C, et al. Among authors: alkan c. Bioinformatics. 2016 Aug 1;32(15):2243-7. doi: 10.1093/bioinformatics/btw139. Epub 2016 Mar 11. Bioinformatics. 2016. PMID: 27153582
Sensitive and fast mapping of di-base encoded reads.
Hormozdiari F, Hach F, Sahinalp SC, Eichler EE, Alkan C. Hormozdiari F, et al. Among authors: alkan c. Bioinformatics. 2011 Jul 15;27(14):1915-21. doi: 10.1093/bioinformatics/btr303. Epub 2011 May 17. Bioinformatics. 2011. PMID: 21586516 Free PMC article.
Fast and accurate mapping of Complete Genomics reads.
Lee D, Hormozdiari F, Xin H, Hach F, Mutlu O, Alkan C. Lee D, et al. Among authors: alkan c. Methods. 2015 Jun;79-80:3-10. doi: 10.1016/j.ymeth.2014.10.012. Epub 2014 Oct 22. Methods. 2015. PMID: 25461772 Free PMC article.
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. Kavak P, et al. Among authors: alkan c. PLoS One. 2015 Sep 18;10(9):e0138259. doi: 10.1371/journal.pone.0138259. eCollection 2015. PLoS One. 2015. PMID: 26382624 Free PMC article.
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. Xin H, et al. Among authors: alkan c. Bioinformatics. 2016 Jun 1;32(11):1632-42. doi: 10.1093/bioinformatics/btv670. Epub 2015 Nov 14. Bioinformatics. 2016. PMID: 26568624 Free PMC article.
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. Eslami Rasekh M, et al. Among authors: alkan c. BMC Genomics. 2017 Jan 10;18(1):65. doi: 10.1186/s12864-016-3444-1. BMC Genomics. 2017. PMID: 28073353 Free PMC article.
135 results