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Optical mapping: new applications, advances and challenges

Prof David C. Schwartz

  1. Content type: Research

    Resolution of complex repeat structures and rearrangements in the assembly and analysis of large eukaryotic genomes is often aided by a combination of high-throughput sequencing and genome-mapping technologies...

    Authors: Davide Verzotto, Audrey S. M. Teo, Axel M. Hillmer and Niranjan Nagarajan

    Citation: GigaScience 2016 5:2

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  2. Content type: Data Note

    Next-generation sequencing (NGS) technologies have changed our understanding of the variability of the human genome. However, the identification of genome structural variations based on NGS approaches with rea...

    Authors: Audrey S. M. Teo, Davide Verzotto, Fei Yao, Niranjan Nagarajan and Axel M. Hillmer

    Citation: GigaScience 2015 4:65

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  3. Content type: Technical Note

    It remains a challenge to perform de novo assembly using next-generation sequencing (NGS). Despite the availability of multiple sequencing technologies and tools (e.g., assemblers) it is still difficult to ass...

    Authors: Remi-Andre Olsen, Ignas Bunikis, Ievgeniia Tiukova, Kicki Holmberg, Britta Lötstedt, Olga Vinnere Pettersson, Volkmar Passoth, Max Käller and Francesco Vezzi

    Citation: GigaScience 2015 4:56

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  4. Content type: Review

    Optical Mapping is an established single-molecule, whole-genome analysis system, which has been used to gain a comprehensive understanding of genomic structure and to study structural variation of complex geno...

    Authors: Prabu Ravindran and Aditya Gupta

    Citation: GigaScience 2015 4:57

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  5. Content type: Review

    Optical mapping has been widely used to improve de novo plant genome assemblies, including rice, maize, Medicago, Amborella, tomato and wheat, with more genomes in the pipeline. Optical mapping provides long-rang...

    Authors: Haibao Tang, Eric Lyons and Christopher D Town

    Citation: GigaScience 2015 4:3

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  6. Content type: Research

    Structural variants (SVs) are less common than single nucleotide polymorphisms and indels in the population, but collectively account for a significant fraction of genetic polymorphism and diseases. Base pair ...

    Authors: Hongzhi Cao, Alex R Hastie, Dandan Cao, Ernest T Lam, Yuhui Sun, Haodong Huang, Xiao Liu, Liya Lin, Warren Andrews, Saki Chan, Shujia Huang, Xin Tong, Michael Requa, Thomas Anantharaman, Anders Krogh, Huanming Yang…

    Citation: GigaScience 2014 3:34

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  7. Content type: Review

    Optical mapping and newer genome mapping technologies based on nicking enzymes provide low resolution but long-range genomic information. The optical mapping technique has been successfully used for assessing ...

    Authors: Lee Mendelowitz and Mihai Pop

    Citation: GigaScience 2014 3:33

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