These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

146 related articles for article (PubMed ID: 35849103)

  • 1. Clair3-trio: high-performance Nanopore long-read variant calling in family trios with trio-to-trio deep neural networks.
    Su J; Zheng Z; Ahmed SS; Lam TW; Luo R
    Brief Bioinform; 2022 Sep; 23(5):. PubMed ID: 35849103
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Benchmarking reveals superiority of deep learning variant callers on bacterial nanopore sequence data.
    Hall MB; Wick RR; Judd LM; Nguyen AN; Steinig EJ; Xie O; Davies M; Seemann T; Stinear TP; Coin L
    Elife; 2024 Oct; 13():. PubMed ID: 39388235
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Boosting variant-calling performance with multi-platform sequencing data using Clair3-MP.
    Yu H; Zheng Z; Su J; Lam TW; Luo R
    BMC Bioinformatics; 2023 Aug; 24(1):308. PubMed ID: 37537536
    [TBL] [Abstract][Full Text] [Related]  

  • 4. dv-trio: a family-based variant calling pipeline using DeepVariant.
    Ip EKK; Hadinata C; Ho JWK; Giannoulatou E
    Bioinformatics; 2020 Jun; 36(11):3549-3551. PubMed ID: 32315409
    [TBL] [Abstract][Full Text] [Related]  

  • 5. A Comparison of Structural Variant Calling from Short-Read and Nanopore-Based Whole-Genome Sequencing Using Optical Genome Mapping as a Benchmark.
    Pei Y; Tanguy M; Giess A; Dixit A; Wilson LC; Gibbons RJ; Twigg SRF; Elgar G; Wilkie AOM
    Genes (Basel); 2024 Jul; 15(7):. PubMed ID: 39062704
    [TBL] [Abstract][Full Text] [Related]  

  • 6. NanoSNP: a progressive and haplotype-aware SNP caller on low-coverage nanopore sequencing data.
    Huang N; Xu M; Nie F; Ni P; Xiao CL; Luo F; Wang J
    Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36548365
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads.
    Shafin K; Pesout T; Chang PC; Nattestad M; Kolesnikov A; Goel S; Baid G; Kolmogorov M; Eizenga JM; Miga KH; Carnevali P; Jain M; Carroll A; Paten B
    Nat Methods; 2021 Nov; 18(11):1322-1332. PubMed ID: 34725481
    [TBL] [Abstract][Full Text] [Related]  

  • 8. miniSNV: accurate and fast single nucleotide variant calling from nanopore sequencing data.
    Cui M; Liu Y; Yu X; Guo H; Jiang T; Wang Y; Liu B
    Brief Bioinform; 2024 Sep; 25(6):. PubMed ID: 39331016
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Evaluation of the Available Variant Calling Tools for Oxford Nanopore Sequencing in Breast Cancer.
    Helal AA; Saad BT; Saad MT; Mosaad GS; Aboshanab KM
    Genes (Basel); 2022 Sep; 13(9):. PubMed ID: 36140751
    [TBL] [Abstract][Full Text] [Related]  

  • 10. ECNano: A cost-effective workflow for target enrichment sequencing and accurate variant calling on 4800 clinically significant genes using a single MinION flowcell.
    Leung AW; Leung HC; Wong CL; Zheng ZX; Lui WW; Luk HM; Lo IF; Luo R; Lam TW
    BMC Med Genomics; 2022 Mar; 15(1):43. PubMed ID: 35246132
    [TBL] [Abstract][Full Text] [Related]  

  • 11. DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads.
    Boža V; Brejová B; Vinař T
    PLoS One; 2017; 12(6):e0178751. PubMed ID: 28582401
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Systematic benchmark of state-of-the-art variant calling pipelines identifies major factors affecting accuracy of coding sequence variant discovery.
    Barbitoff YA; Abasov R; Tvorogova VE; Glotov AS; Predeus AV
    BMC Genomics; 2022 Feb; 23(1):155. PubMed ID: 35193511
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Local read haplotagging enables accurate long-read small variant calling.
    Kolesnikov A; Cook D; Nattestad M; Brambrink L; McNulty B; Gorzynski J; Goenka S; Ashley EA; Jain M; Miga KH; Paten B; Chang PC; Carroll A; Shafin K
    Nat Commun; 2024 Jul; 15(1):5907. PubMed ID: 39003259
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Vulcan: Improved long-read mapping and structural variant calling via dual-mode alignment.
    Fu Y; Mahmoud M; Muraliraman VV; Sedlazeck FJ; Treangen TJ
    Gigascience; 2021 Sep; 10(9):. PubMed ID: 34561697
    [TBL] [Abstract][Full Text] [Related]  

  • 15. trioPhaser: using Mendelian inheritance logic to improve genomic phasing of trios.
    Miller DB; Piccolo SR
    BMC Bioinformatics; 2021 Nov; 22(1):559. PubMed ID: 34809557
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Symphonizing pileup and full-alignment for deep learning-based long-read variant calling.
    Zheng Z; Li S; Su J; Leung AW; Lam TW; Luo R
    Nat Comput Sci; 2022 Dec; 2(12):797-803. PubMed ID: 38177392
    [TBL] [Abstract][Full Text] [Related]  

  • 17. DNAscent v2: detecting replication forks in nanopore sequencing data with deep learning.
    Boemo MA
    BMC Genomics; 2021 Jun; 22(1):430. PubMed ID: 34107894
    [TBL] [Abstract][Full Text] [Related]  

  • 18. HELLO: improved neural network architectures and methodologies for small variant calling.
    Ramachandran A; Lumetta SS; Klee EW; Chen D
    BMC Bioinformatics; 2021 Aug; 22(1):404. PubMed ID: 34391391
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Nanopanel2 calls phased low-frequency variants in Nanopore panel sequencing data.
    Popitsch N; Preuner S; Lion T
    Bioinformatics; 2021 Dec; 37(24):4620-4625. PubMed ID: 34270680
    [TBL] [Abstract][Full Text] [Related]  

  • 20. A multi-task convolutional deep neural network for variant calling in single molecule sequencing.
    Luo R; Sedlazeck FJ; Lam TW; Schatz MC
    Nat Commun; 2019 Mar; 10(1):998. PubMed ID: 30824707
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 8.