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Structural variation and fusion detection using targeted sequencing data from circulating cell free DNA.
Nucleic Acids Res. 2019 Apr 23;47(7):e38. doi: 10.1093/nar/gkz067.
Nucleic Acids Res. 2019.
PMID: 30759232
Free PMC article.
SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA.
Kockan C, Hach F, Sarrafi I, Bell RH, McConeghy B, Beja K, Haegert A, Wyatt AW, Volik SV, Chi KN, Collins CC, Sahinalp SC.
Kockan C, et al.
Bioinformatics. 2017 Jan 1;33(1):26-34. doi: 10.1093/bioinformatics/btw536. Epub 2016 Aug 16.
Bioinformatics. 2017.
PMID: 27531099
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Sketching algorithms for genomic data analysis and querying in a secure enclave.
Kockan C, Zhu K, Dokmai N, Karpov N, Kulekci MO, Woodruff DP, Sahinalp SC.
Kockan C, et al.
Nat Methods. 2020 Mar;17(3):295-301. doi: 10.1038/s41592-020-0761-8. Epub 2020 Mar 4.
Nat Methods. 2020.
PMID: 32132732
Free PMC article.
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Privacy-preserving genotype imputation in a trusted execution environment.
Dokmai N, Kockan C, Zhu K, Wang X, Sahinalp SC, Cho H.
Dokmai N, et al. Among authors: kockan c.
Cell Syst. 2021 Oct 20;12(10):983-993.e7. doi: 10.1016/j.cels.2021.08.001. Epub 2021 Aug 26.
Cell Syst. 2021.
PMID: 34450045
Free PMC article.
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Privacy-Preserving Genotype Imputation in a Trusted Execution Environment.
Dokmai N, Kockan C, Zhu K, Wang X, Sahinalp SC, Cho H.
Dokmai N, et al. Among authors: kockan c.
Res Comput Mol Biol. 2021 Oct 20;12(10):983-993.e7. Epub 2021 Aug 26.
Res Comput Mol Biol. 2021.
PMID: 34859247
Free PMC article.
No abstract available.
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Toolkit for automated and rapid discovery of structural variants.
Soylev A, Kockan C, Hormozdiari F, Alkan C.
Soylev A, et al. Among authors: kockan c.
Methods. 2017 Oct 1;129:3-7. doi: 10.1016/j.ymeth.2017.05.030. Epub 2017 Jun 2.
Methods. 2017.
PMID: 28583483
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