Search Results - Benjamin J. Raphael

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  1. 1
    Identification of hierarchical chromatin domains

    Identification of hierarchical chromatin domains by Caleb Weinreb, Benjamin J. Raphael

    Published 2015
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  2. 2
    Tumor phylogeny inference using tree-constrained importance sampling

    Tumor phylogeny inference using tree-constrained importance sampling by Gryte Satas, Benjamin J. Raphael

    Published 2017
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  3. 3
    Accurate quantification of copy-number aberrations and whole-genome duplications in multi-sample tumor sequencing data

    Accurate quantification of copy-number aberrations and whole-genome duplications in multi-sample tumor sequencing data by Simone Zaccaria, Benjamin J. Raphael

    Published 2020
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  4. 4
    Characterizing allele- and haplotype-specific copy numbers in single cells with CHISEL

    Characterizing allele- and haplotype-specific copy numbers in single cells with CHISEL by Simone Zaccaria, Benjamin J. Raphael

    Published 2020
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  5. 5
    Quantifying tumor heterogeneity in whole-genome and whole-exome sequencing data

    Quantifying tumor heterogeneity in whole-genome and whole-exome sequencing data by Layla Oesper, Gryte Satas, Benjamin J. Raphael

    Published 2014
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  6. 6
    De novo discovery of mutated driver pathways in cancer

    De novo discovery of mutated driver pathways in cancer by Fabio Vandin, Eli Upfal, Benjamin J. Raphael

    Published 2011
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  7. 7
    THetA: inferring intra-tumor heterogeneity from high-throughput DNA sequencing data

    THetA: inferring intra-tumor heterogeneity from high-throughput DNA sequencing data by Layla Oesper, Ahmad Mahmoody, Benjamin J. Raphael

    Published 2013
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  8. 8
    A combinatorial approach for analyzing intra-tumor heterogeneity from high-throughput sequencing data

    A combinatorial approach for analyzing intra-tumor heterogeneity from high-throughput sequencing data by Iman Hajirasouliha, Ahmad Mahmoody, Benjamin J. Raphael

    Published 2014
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  9. 9
    Gene and Network Analysis of Common Variants Reveals Novel Associations in Multiple Complex Diseases

    Gene and Network Analysis of Common Variants Reveals Novel Associations in Multiple Complex Diseases by Priyanka Nakka, Benjamin J. Raphael, Sohini Ramachandran

    Published 2016
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  10. 10
    Identifying Simultaneous Rearrangements in Cancer Genomes

    Identifying Simultaneous Rearrangements in Cancer Genomes by Layla Oesper, Simone Dantas, Benjamin J. Raphael

    Published 2017
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  11. 11
    CALDER: Inferring Phylogenetic Trees from Longitudinal Tumor Samples

    CALDER: Inferring Phylogenetic Trees from Longitudinal Tumor Samples by Matthew Myers, Gryte Satas, Benjamin J. Raphael

    Published 2019
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  12. 12
    Identifying simultaneous rearrangements in cancer genomes

    Identifying simultaneous rearrangements in cancer genomes by Layla Oesper, Simone Dantas, Benjamin J. Raphael

    Published 2017
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  13. 13
    Detecting non-allelic homologous recombination from high-throughput sequencing data

    Detecting non-allelic homologous recombination from high-throughput sequencing data by Matthew Parks, Charles E. Lawrence, Benjamin J. Raphael

    Published 2015
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  14. 14
    Inferring parsimonious migration histories for metastatic cancers

    Inferring parsimonious migration histories for metastatic cancers by Mohammed El-Kebir, Gryte Satas, Benjamin J. Raphael

    Published 2018
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  15. 15
    Identifying structural variants using linked-read sequencing data

    Identifying structural variants using linked-read sequencing data by Rebecca Elyanow, Hsin-Ta Wu, Benjamin J. Raphael

    Published 2017
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  16. 16
    A geometric approach for classification and comparison of structural variants

    A geometric approach for classification and comparison of structural variants by Suzanne Sindi, Elena Helman, Ali Bashir, Benjamin J. Raphael

    Published 2009
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  17. 17
    Single-cell sequencing data reveal widespread recurrence and loss of mutational hits in the life histories of tumors

    Single-cell sequencing data reveal widespread recurrence and loss of mutational hits in the life histories of tumors by Jack Kuipers, Katharina Jahn, Benjamin J. Raphael, Niko Beerenwinkel

    Published 2017
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  18. 18
    SCARLET: Single-Cell Tumor Phylogeny Inference with Copy-Number Constrained Mutation Losses

    SCARLET: Single-Cell Tumor Phylogeny Inference with Copy-Number Constrained Mutation Losses by Gryte Satas, Simone Zaccaria, Geoffrey Mon, Benjamin J. Raphael

    Published 2020
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  19. 19
    STARCH: copy number and clone inference from spatial transcriptomics data

    STARCH: copy number and clone inference from spatial transcriptomics data by Rebecca Elyanow, Ron Zeira, Max Land, Benjamin J. Raphael

    Published 2020
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  20. 20
    Alignment and integration of spatial transcriptomics data

    Alignment and integration of spatial transcriptomics data by Ron Zeira, Max Land, Alexander Strzalkowski, Benjamin J. Raphael

    Published 2022
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