BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

189 related articles for article (PubMed ID: 27999612)

  • 1. PureCN: copy number calling and SNV classification using targeted short read sequencing.
    Riester M; Singh AP; Brannon AR; Yu K; Campbell CD; Chiang DY; Morrissey MP
    Source Code Biol Med; 2016; 11():13. PubMed ID: 27999612
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Reliable Analysis of Clinical Tumor-Only Whole-Exome Sequencing Data.
    Oh S; Geistlinger L; Ramos M; Morgan M; Waldron L; Riester M
    JCO Clin Cancer Inform; 2020 Apr; 4():321-335. PubMed ID: 32282230
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Leveraging Spatial Variation in Tumor Purity for Improved Somatic Variant Calling of Archival Tumor Only Samples.
    Halperin RF; Liang WS; Kulkarni S; Tassone EE; Adkins J; Enriquez D; Tran NL; Hank NC; Newell J; Kodira C; Korn R; Berens ME; Kim S; Byron SA
    Front Oncol; 2019; 9():119. PubMed ID: 30949446
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Accurity: accurate tumor purity and ploidy inference from tumor-normal WGS data by jointly modelling somatic copy number alterations and heterozygous germline single-nucleotide-variants.
    Luo Z; Fan X; Su Y; Huang YS
    Bioinformatics; 2018 Jun; 34(12):2004-2011. PubMed ID: 29385401
    [TBL] [Abstract][Full Text] [Related]  

  • 5. CLImAT-HET: detecting subclonal copy number alterations and loss of heterozygosity in heterogeneous tumor samples from whole-genome sequencing data.
    Yu Z; Li A; Wang M
    BMC Med Genomics; 2017 Mar; 10(1):15. PubMed ID: 28298214
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Canvas: versatile and scalable detection of copy number variants.
    Roller E; Ivakhno S; Lee S; Royce T; Tanner S
    Bioinformatics; 2016 Aug; 32(15):2375-7. PubMed ID: 27153601
    [TBL] [Abstract][Full Text] [Related]  

  • 7. 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]  

  • 8. AbsCN-seq: a statistical method to estimate tumor purity, ploidy and absolute copy numbers from next-generation sequencing data.
    Bao L; Pu M; Messer K
    Bioinformatics; 2014 Apr; 30(8):1056-1063. PubMed ID: 24389661
    [TBL] [Abstract][Full Text] [Related]  

  • 9. A method to reduce ancestry related germline false positives in tumor only somatic variant calling.
    Halperin RF; Carpten JD; Manojlovic Z; Aldrich J; Keats J; Byron S; Liang WS; Russell M; Enriquez D; Claasen A; Cherni I; Awuah B; Oppong J; Wicha MS; Newman LA; Jaigge E; Kim S; Craig DW
    BMC Med Genomics; 2017 Oct; 10(1):61. PubMed ID: 29052513
    [TBL] [Abstract][Full Text] [Related]  

  • 10. FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing.
    Shen R; Seshan VE
    Nucleic Acids Res; 2016 Sep; 44(16):e131. PubMed ID: 27270079
    [TBL] [Abstract][Full Text] [Related]  

  • 11. A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal.
    Sun JX; He Y; Sanford E; Montesion M; Frampton GM; Vignot S; Soria JC; Ross JS; Miller VA; Stephens PJ; Lipson D; Yelensky R
    PLoS Comput Biol; 2018 Feb; 14(2):e1005965. PubMed ID: 29415044
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Versatile Identification of Copy Number Variants with Canvas.
    Ivakhno S; Roller E
    Methods Mol Biol; 2018; 1833():155-168. PubMed ID: 30039371
    [TBL] [Abstract][Full Text] [Related]  

  • 13. TOSCA: an automated Tumor Only Somatic CAlling workflow for somatic mutation detection without matched normal samples.
    Del Corvo M; Mazzara S; Pileri SA
    Bioinform Adv; 2022; 2(1):vbac070. PubMed ID: 36699358
    [TBL] [Abstract][Full Text] [Related]  

  • 14. SomatiCA: identifying, characterizing and quantifying somatic copy number aberrations from cancer genome sequencing data.
    Chen M; Gunel M; Zhao H
    PLoS One; 2013; 8(11):e78143. PubMed ID: 24265680
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Germline contamination and leakage in whole genome somatic single nucleotide variant detection.
    Sendorek DH; Caloian C; Ellrott K; Bare JC; Yamaguchi TN; Ewing AD; Houlahan KE; Norman TC; Margolin AA; Stuart JM; Boutros PC
    BMC Bioinformatics; 2018 Jan; 19(1):28. PubMed ID: 29385983
    [TBL] [Abstract][Full Text] [Related]  

  • 16. SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations.
    Liu Y; Loewer M; Aluru S; Schmidt B
    BMC Syst Biol; 2016 Aug; 10 Suppl 2(Suppl 2):47. PubMed ID: 27489955
    [TBL] [Abstract][Full Text] [Related]  

  • 17. GSA: an independent development algorithm for calling copy number and detecting homologous recombination deficiency (HRD) from target capture sequencing.
    Chen D; Shao M; Meng P; Wang C; Li Q; Cai Y; Song C; Wang X; Shi T
    BMC Bioinformatics; 2021 Nov; 22(1):562. PubMed ID: 34814825
    [TBL] [Abstract][Full Text] [Related]  

  • 18. CNVfilteR: an R/Bioconductor package to identify false positives produced by germline NGS CNV detection tools.
    Moreno-Cabrera JM; Del Valle J; Castellanos E; Feliubadaló L; Pineda M; Serra E; Capellá G; Lázaro C; Gel B
    Bioinformatics; 2021 Nov; 37(22):4227-4229. PubMed ID: 33983414
    [TBL] [Abstract][Full Text] [Related]  

  • 19. CLImAT: accurate detection of copy number alteration and loss of heterozygosity in impure and aneuploid tumor samples using whole-genome sequencing data.
    Yu Z; Liu Y; Shen Y; Wang M; Li A
    Bioinformatics; 2014 Sep; 30(18):2576-83. PubMed ID: 24845652
    [TBL] [Abstract][Full Text] [Related]  

  • 20. TPES: tumor purity estimation from SNVs.
    Locallo A; Prandi D; Fedrizzi T; Demichelis F
    Bioinformatics; 2019 Nov; 35(21):4433-4435. PubMed ID: 31099386
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 10.