BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

181 related articles for article (PubMed ID: 38410652)

  • 1. Evaluation of simulation methods for tumor subclonal reconstruction.
    Lai J; Liu Y; Scharpf RB; Karchin R
    ArXiv; 2024 Feb; ():. PubMed ID: 38410652
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Decomposing the subclonal structure of tumors with two-way mixture models on copy number aberrations.
    Tai AS; Peng CH; Peng SC; Hsieh WP
    PLoS One; 2018; 13(12):e0206579. PubMed ID: 30540749
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Principles of Reconstructing the Subclonal Architecture of Cancers.
    Dentro SC; Wedge DC; Van Loo P
    Cold Spring Harb Perspect Med; 2017 Aug; 7(8):. PubMed ID: 28270531
    [TBL] [Abstract][Full Text] [Related]  

  • 4. MixClone: a mixture model for inferring tumor subclonal populations.
    Li Y; Xie X
    BMC Genomics; 2015; 16 Suppl 2(Suppl 2):S1. PubMed ID: 25707430
    [TBL] [Abstract][Full Text] [Related]  

  • 5. CloneCNA: detecting subclonal somatic copy number alterations in heterogeneous tumor samples from whole-exome sequencing data.
    Yu Z; Li A; Wang M
    BMC Bioinformatics; 2016 Aug; 17():310. PubMed ID: 27538789
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Exploiting allele-specific transcriptional effects of subclonal copy number alterations for genotype-phenotype mapping in cancer cell populations.
    Shi H; Williams MJ; Satas G; Weiner AC; McPherson A; Shah SP
    bioRxiv; 2023 Jan; ():. PubMed ID: 36711951
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection.
    Lee AY; Ewing AD; Ellrott K; Hu Y; Houlahan KE; Bare JC; Espiritu SMG; Huang V; Dang K; Chong Z; Caloian C; Yamaguchi TN; ; Kellen MR; Chen K; Norman TC; Friend SH; Guinney J; Stolovitzky G; Haussler D; Margolin AA; Stuart JM; Boutros PC
    Genome Biol; 2018 Nov; 19(1):188. PubMed ID: 30400818
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Hierarchical discovery of large-scale and focal copy number alterations in low-coverage cancer genomes.
    Khalil AIS; Khyriem C; Chattopadhyay A; Sanyal A
    BMC Bioinformatics; 2020 Apr; 21(1):147. PubMed ID: 32299346
    [TBL] [Abstract][Full Text] [Related]  

  • 9. CONIPHER: a computational framework for scalable phylogenetic reconstruction with error correction.
    Grigoriadis K; Huebner A; Bunkum A; Colliver E; Frankell AM; Hill MS; Thol K; Birkbak NJ; Swanton C; Zaccaria S; McGranahan N
    Nat Protoc; 2024 Jan; 19(1):159-183. PubMed ID: 38017136
    [TBL] [Abstract][Full Text] [Related]  

  • 10. COMPASS: joint copy number and mutation phylogeny reconstruction from amplicon single-cell sequencing data.
    Sollier E; Kuipers J; Takahashi K; Beerenwinkel N; Jahn K
    Nat Commun; 2023 Aug; 14(1):4921. PubMed ID: 37582954
    [TBL] [Abstract][Full Text] [Related]  

  • 11. A community effort to create standards for evaluating tumor subclonal reconstruction.
    Salcedo A; Tarabichi M; Espiritu SMG; Deshwar AG; David M; Wilson NM; Dentro S; Wintersinger JA; Liu LY; Ko M; Sivanandan S; Zhang H; Zhu K; Ou Yang TH; Chilton JM; Buchanan A; Lalansingh CM; P'ng C; Anghel CV; Umar I; Lo B; Zou W; ; Simpson JT; Stuart JM; Anastassiou D; Guan Y; Ewing AD; Ellrott K; Wedge DC; Morris Q; Van Loo P; Boutros PC
    Nat Biotechnol; 2020 Jan; 38(1):97-107. PubMed ID: 31919445
    [TBL] [Abstract][Full Text] [Related]  

  • 12. PhyloWGS: reconstructing subclonal composition and evolution from whole-genome sequencing of tumors.
    Deshwar AG; Vembu S; Yung CK; Jang GH; Stein L; Morris Q
    Genome Biol; 2015 Feb; 16(1):35. PubMed ID: 25786235
    [TBL] [Abstract][Full Text] [Related]  

  • 13. SubClonal Hierarchy Inference from Somatic Mutations: Automatic Reconstruction of Cancer Evolutionary Trees from Multi-region Next Generation Sequencing.
    Niknafs N; Beleva-Guthrie V; Naiman DQ; Karchin R
    PLoS Comput Biol; 2015 Oct; 11(10):e1004416. PubMed ID: 26436540
    [TBL] [Abstract][Full Text] [Related]  

  • 14. BiTSC 2: Bayesian inference of tumor clonal tree by joint analysis of single-cell SNV and CNA data.
    Chen Z; Gong F; Wan L; Ma L
    Brief Bioinform; 2022 May; 23(3):. PubMed ID: 35368055
    [TBL] [Abstract][Full Text] [Related]  

  • 15. HATCHet2: clone- and haplotype-specific copy number inference from bulk tumor sequencing data.
    Myers MA; Arnold BJ; Bansal V; Mullen KM; Zaccaria S; Raphael BJ
    bioRxiv; 2023 Jul; ():. PubMed ID: 37502835
    [TBL] [Abstract][Full Text] [Related]  

  • 16. A practical guide to cancer subclonal reconstruction from DNA sequencing.
    Tarabichi M; Salcedo A; Deshwar AG; Ni Leathlobhair M; Wintersinger J; Wedge DC; Van Loo P; Morris QD; Boutros PC
    Nat Methods; 2021 Feb; 18(2):144-155. PubMed ID: 33398189
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Patterns of chromosomal copy-number alterations in intrahepatic cholangiocarcinoma.
    Dalmasso C; Carpentier W; Guettier C; Camilleri-Broët S; Borelli WV; Campos Dos Santos CR; Castaing D; Duclos-Vallée JC; Broët P
    BMC Cancer; 2015 Mar; 15():126. PubMed ID: 25879652
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Quantifying the influence of mutation detection on tumour subclonal reconstruction.
    Liu LY; Bhandari V; Salcedo A; Espiritu SMG; Morris QD; Kislinger T; Boutros PC
    Nat Commun; 2020 Dec; 11(1):6247. PubMed ID: 33288765
    [TBL] [Abstract][Full Text] [Related]  

  • 19. A Pipeline for Reconstructing Somatic Copy Number Alternation's Subclonal Population-Based Next-Generation Sequencing Data.
    Chu Y; Nie C; Wang Y
    Front Genet; 2019; 10():1374. PubMed ID: 32180789
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Characterizing allele- and haplotype-specific copy numbers in single cells with CHISEL.
    Zaccaria S; Raphael BJ
    Nat Biotechnol; 2021 Feb; 39(2):207-214. PubMed ID: 32879467
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 10.