Search Results - Can Alkan

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  1. 1
    Limitations of next-generation genome sequence assembly

    Limitations of next-generation genome sequence assembly by Can Alkan, Saba Sajjadian, Evan E. Eichler

    Published 2010
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  2. 2
    Genome structural variation discovery and genotyping

    Genome structural variation discovery and genotyping by Can Alkan, Bradley P. Coe, Evan E. Eichler

    Published 2011
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  3. 3
    Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes

    Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes by Fereydoun Hormozdiari, Can Alkan, Evan E. Eichler, S. Cenk Şahinalp

    Published 2009
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  4. 4
    Shouji: a fast and efficient pre-alignment filter for sequence alignment

    Shouji: a fast and efficient pre-alignment filter for sequence alignment by Mohammed Alser, Hasan Hassan, Akash Kumar, Onur Mutlu, Can Alkan

    Published 2019
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  5. 5
    Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions

    Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions by Damla Senol Cali, Jeremie S. Kim, Saugata Ghose, Can Alkan, Onur Mutlu

    Published 2018
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  6. 6
    Accelerating read mapping with FastHASH

    Accelerating read mapping with FastHASH by Hongyi Xin, Donghyuk Lee, Farhad Hormozdiari, Samihan Yedkar, Onur Mutlu, Can Alkan

    Published 2013
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  7. 7
    Comparative analysis of <i>Alu</i> repeats in primate genomes

    Comparative analysis of <i>Alu</i> repeats in primate genomes by George E. Liu, Can Alkan, Jiang Lu, Shaying Zhao, Evan E. Eichler

    Published 2009
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  8. 8
    GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping

    GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping by Mohammed Alser, Hasan Hassan, Hongyi Xin, Oğuz Ergin, Onur Mutlu, Can Alkan

    Published 2017
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  9. 9
    mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications

    mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications by Faraz Hach, Iman Sarrafi, Farhad Hormozdiari, Can Alkan, Evan E. Eichler, S. Cenk Şahinalp

    Published 2014
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  10. 10
    Fast characterization of segmental duplications in genome assemblies

    Fast characterization of segmental duplications in genome assemblies by Ibrahim Numanagić, Alim Şükrücan Gökkaya, Lillian Zhang, Bonnie Berger, Can Alkan, Faraz Hach

    Published 2018
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  11. 11
    Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping

    Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping by Hongyi Xin, John Greth, John Emmons, Gennady Pekhimenko, Carl Kingsford, Can Alkan, Onur Mutlu

    Published 2015
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  12. 12
    mrsFAST: a cache-oblivious algorithm for short-read mapping

    mrsFAST: a cache-oblivious algorithm for short-read mapping by Faraz Hach, Fereydoun Hormozdiari, Can Alkan, Farhad Hormozdiari, İnanç Birol, Evan E. Eichler, S. Cenk Şahinalp

    Published 2010
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  13. 13
    Accelerating Genome Analysis: A Primer on an Ongoing Journey

    Accelerating Genome Analysis: A Primer on an Ongoing Journey by Mohammed Alser, Zülal Bingöl, Damla Senol Cali, Jeremie Kim, Saugata Ghose, Can Alkan, Onur Mutlu

    Published 2020
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  14. 14
    Detection and characterization of novel sequence insertions using paired-end next-generation sequencing

    Detection and characterization of novel sequence insertions using paired-end next-generation sequencing by Iman Hajirasouliha, Fereydoun Hormozdiari, Can Alkan, Jeffrey M. Kidd, İnanç Birol, Evan E. Eichler, S. Cenk Şahinalp

    Published 2010
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  15. 15
    Apollo: a sequencing-technology-independent, scalable and accurate assembly polishing algorithm

    Apollo: a sequencing-technology-independent, scalable and accurate assembly polishing algorithm by Can Fırtına, Jeremie S. Kim, Mohammed Alser, Damla Senol Cali, A. Ercüment Çiçek, Can Alkan, Onur Mutlu

    Published 2020
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  16. 16
    Early postzygotic mutations contribute to de novo variation in a healthy monozygotic twin pair

    Early postzygotic mutations contribute to de novo variation in a healthy monozygotic twin pair by Gülşah M Dal, Bekir Ergüner, Mahmut Şamil Sağıroğlu, Bayram Yüksel, Onur Emre Onat, Can Alkan, Tayfun Özçelık

    Published 2014
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  17. 17
    Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery

    Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery by Fereydoun Hormozdiari, Iman Hajirasouliha, Phuong Dao, Faraz Hach, Deniz Yörükoğlu, Can Alkan, Evan E. Eichler, S. Cenk Şahinalp

    Published 2010
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  18. 18
    GRIM-Filter: Fast seed location filtering in DNA read mapping using processing-in-memory technologies

    GRIM-Filter: Fast seed location filtering in DNA read mapping using processing-in-memory technologies by Jeremie S. Kim, Damla Senol Cali, Hongyi Xin, Donghyuk Lee, Saugata Ghose, Mohammed Alser, Hasan Hassan, Oğuz Ergin, Can Alkan, Onur Mutlu

    Published 2018
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  19. 19
    Analysis of Primate Genomic Variation Reveals a Repeat-Driven Expansion of the Human Genome

    Analysis of Primate Genomic Variation Reveals a Repeat-Driven Expansion of the Human Genome by Ge Liu, NISC Comparative Sequencing Program, Shaying Zhao, Jeffrey A. Bailey, S. Cenk Şahinalp, Can Alkan, Eray Tüzün, Eric D. Green, Evan E. Eichler

    Published 2003
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  20. 20
    Diversity of Human Copy Number Variation and Multicopy Genes

    Diversity of Human Copy Number Variation and Multicopy Genes by Peter H. Sudmant, Jacob O. Kitzman, Francesca Antonacci, Can Alkan, Maika Malig, Anya Tsalenko, Nick Sampas, Laurakay Bruhn, Jay Shendure, Evan E. Eichler

    Published 2010
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