BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

1239 related articles for article (PubMed ID: 26647377)

  • 1. Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications.
    Chen X; Schulz-Trieglaff O; Shaw R; Barnes B; Schlesinger F; Källberg M; Cox AJ; Kruglyak S; Saunders CT
    Bioinformatics; 2016 Apr; 32(8):1220-2. PubMed ID: 26647377
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Leveraging known genomic variants to improve detection of variants, especially close-by Indels.
    Vo NS; Phan V
    Bioinformatics; 2018 Sep; 34(17):2918-2926. PubMed ID: 29590294
    [TBL] [Abstract][Full Text] [Related]  

  • 3. INDELseek: detection of complex insertions and deletions from next-generation sequencing data.
    Au CH; Leung AY; Kwong A; Chan TL; Ma ES
    BMC Genomics; 2017 Jan; 18(1):16. PubMed ID: 28056804
    [TBL] [Abstract][Full Text] [Related]  

  • 4. SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA.
    Kockan C; Hach F; Sarrafi I; Bell RH; McConeghy B; Beja K; Haegert A; Wyatt AW; Volik SV; Chi KN; Collins CC; Sahinalp SC
    Bioinformatics; 2017 Jan; 33(1):26-34. PubMed ID: 27531099
    [TBL] [Abstract][Full Text] [Related]  

  • 5. VarSim: a high-fidelity simulation and validation framework for high-throughput genome sequencing with cancer applications.
    Mu JC; Mohiyuddin M; Li J; Bani Asadi N; Gerstein MB; Abyzov A; Wong WH; Lam HY
    Bioinformatics; 2015 May; 31(9):1469-71. PubMed ID: 25524895
    [TBL] [Abstract][Full Text] [Related]  

  • 6. ReliableGenome: annotation of genomic regions with high/low variant calling concordance.
    Popitsch N; ; Schuh A; Taylor JC
    Bioinformatics; 2017 Jan; 33(2):155-160. PubMed ID: 27605105
    [TBL] [Abstract][Full Text] [Related]  

  • 7. 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]  

  • 8. Strelka2: fast and accurate calling of germline and somatic variants.
    Kim S; Scheffler K; Halpern AL; Bekritsky MA; Noh E; Källberg M; Chen X; Kim Y; Beyter D; Krusche P; Saunders CT
    Nat Methods; 2018 Aug; 15(8):591-594. PubMed ID: 30013048
    [TBL] [Abstract][Full Text] [Related]  

  • 9. neoepiscope improves neoepitope prediction with multivariant phasing.
    Wood MA; Nguyen A; Struck AJ; Ellrott K; Nellore A; Thompson RF
    Bioinformatics; 2020 Feb; 36(3):713-720. PubMed ID: 31424527
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Pisces: an accurate and versatile variant caller for somatic and germline next-generation sequencing data.
    Dunn T; Berry G; Emig-Agius D; Jiang Y; Lei S; Iyer A; Udar N; Chuang HY; Hegarty J; Dickover M; Klotzle B; Robbins J; Bibikova M; Peeters M; Strömberg M
    Bioinformatics; 2019 May; 35(9):1579-1581. PubMed ID: 30304370
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Identification of indels in next-generation sequencing data.
    Ratan A; Olson TL; Loughran TP; Miller W
    BMC Bioinformatics; 2015 Feb; 16(1):42. PubMed ID: 25879703
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Strelka: accurate somatic small-variant calling from sequenced tumor-normal sample pairs.
    Saunders CT; Wong WS; Swamy S; Becq J; Murray LJ; Cheetham RK
    Bioinformatics; 2012 Jul; 28(14):1811-7. PubMed ID: 22581179
    [TBL] [Abstract][Full Text] [Related]  

  • 13. SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability.
    Iakovishina D; Janoueix-Lerosey I; Barillot E; Regnier M; Boeva V
    Bioinformatics; 2016 Apr; 32(7):984-92. PubMed ID: 26740523
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Comparative assessments of indel annotations in healthy and cancer genomes with next-generation sequencing data.
    Chen J; Guo JT
    BMC Med Genomics; 2020 Nov; 13(1):170. PubMed ID: 33167946
    [TBL] [Abstract][Full Text] [Related]  

  • 15. trfermikit: a tool to discover VNTR-associated deletions.
    McHale P; Quinlan AR
    Bioinformatics; 2022 Feb; 38(5):1231-1234. PubMed ID: 34864893
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Discovery of tandem and interspersed segmental duplications using high-throughput sequencing.
    Soylev A; Le TM; Amini H; Alkan C; Hormozdiari F
    Bioinformatics; 2019 Oct; 35(20):3923-3930. PubMed ID: 30937433
    [TBL] [Abstract][Full Text] [Related]  

  • 17. RNAIndel: discovering somatic coding indels from tumor RNA-Seq data.
    Hagiwara K; Ding L; Edmonson MN; Rice SV; Newman S; Easton J; Dai J; Meshinchi S; Ries RE; Rusch M; Zhang J
    Bioinformatics; 2020 Mar; 36(5):1382-1390. PubMed ID: 31593214
    [TBL] [Abstract][Full Text] [Related]  

  • 18. SVEngine: an efficient and versatile simulator of genome structural variations with features of cancer clonal evolution.
    Xia LC; Ai D; Lee H; Andor N; Li C; Zhang NR; Ji HP
    Gigascience; 2018 Jul; 7(7):. PubMed ID: 29982625
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Using genotype array data to compare multi- and single-sample variant calls and improve variant call sets from deep coverage whole-genome sequencing data.
    Shringarpure SS; Mathias RA; Hernandez RD; O'Connor TD; Szpiech ZA; Torres R; De La Vega FM; Bustamante CD; Barnes KC; Taub MA;
    Bioinformatics; 2017 Apr; 33(8):1147-1153. PubMed ID: 28035032
    [TBL] [Abstract][Full Text] [Related]  

  • 20. ConsensuSV-from the whole-genome sequencing data to the complete variant list.
    Chiliński M; Plewczynski D
    Bioinformatics; 2022 Dec; 38(24):5440-5442. PubMed ID: 36315072
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 62.