BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

184 related articles for article (PubMed ID: 35927245)

  • 1. Pan-African genome demonstrates how population-specific genome graphs improve high-throughput sequencing data analysis.
    Tetikol HS; Turgut D; Narci K; Budak G; Kalay O; Arslan E; Demirkaya-Budak S; Dolgoborodov A; Kabakci-Zorlu D; Semenyuk V; Jain A; Davis-Dusenbery BN
    Nat Commun; 2022 Aug; 13(1):4384. PubMed ID: 35927245
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Fast and accurate genomic analyses using genome graphs.
    Rakocevic G; Semenyuk V; Lee WP; Spencer J; Browning J; Johnson IJ; Arsenijevic V; Nadj J; Ghose K; Suciu MC; Ji SG; Demir G; Li L; Toptaş BÇ; Dolgoborodov A; Pollex B; Spulber I; Glotova I; Kómár P; Stachyra AL; Li Y; Popovic M; Källberg M; Jain A; Kural D
    Nat Genet; 2019 Feb; 51(2):354-362. PubMed ID: 30643257
    [TBL] [Abstract][Full Text] [Related]  

  • 3. NovoGraph: Human genome graph construction from multiple long-read
    Biederstedt E; Oliver JC; Hansen NF; Jajoo A; Dunn N; Olson A; Busby B; Dilthey AT
    F1000Res; 2018; 7():1391. PubMed ID: 30613392
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Bovine breed-specific augmented reference graphs facilitate accurate sequence read mapping and unbiased variant discovery.
    Crysnanto D; Pausch H
    Genome Biol; 2020 Jul; 21(1):184. PubMed ID: 32718320
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Demonstrating the utility of flexible sequence queries against indexed short reads with FlexTyper.
    Richmond PA; Kaye AM; Kounkou GJ; Av-Shalom TV; Wasserman WW
    PLoS Comput Biol; 2021 Mar; 17(3):e1008815. PubMed ID: 33750951
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Fast alignment of reads to a variation graph with application to SNP detection.
    Monsu M; Comin M
    J Integr Bioinform; 2021 Nov; 18(4):. PubMed ID: 34783230
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Fast read alignment with incorporation of known genomic variants.
    Guo H; Liu B; Guan D; Fu Y; Wang Y
    BMC Med Inform Decis Mak; 2019 Dec; 19(Suppl 6):265. PubMed ID: 31856811
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Pandora: nucleotide-resolution bacterial pan-genomics with reference graphs.
    Colquhoun RM; Hall MB; Lima L; Roberts LW; Malone KM; Hunt M; Letcher B; Hawkey J; George S; Pankhurst L; Iqbal Z
    Genome Biol; 2021 Sep; 22(1):267. PubMed ID: 34521456
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Pangenome graph construction from genome alignments with Minigraph-Cactus.
    Hickey G; Monlong J; Ebler J; Novak AM; Eizenga JM; Gao Y; ; Marschall T; Li H; Paten B
    Nat Biotechnol; 2024 Apr; 42(4):663-673. PubMed ID: 37165083
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Integrating long-range connectivity information into de Bruijn graphs.
    Turner I; Garimella KV; Iqbal Z; McVean G
    Bioinformatics; 2018 Aug; 34(15):2556-2565. PubMed ID: 29554215
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Towards pan-genome read alignment to improve variation calling.
    Valenzuela D; Norri T; Välimäki N; Pitkänen E; Mäkinen V
    BMC Genomics; 2018 May; 19(Suppl 2):87. PubMed ID: 29764365
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Using 2k + 2 bubble searches to find single nucleotide polymorphisms in k-mer graphs.
    Younsi R; MacLean D
    Bioinformatics; 2015 Mar; 31(5):642-6. PubMed ID: 25344498
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Accurate genotyping across variant classes and lengths using variant graphs.
    Sibbesen JA; Maretty L; ; Krogh A
    Nat Genet; 2018 Jul; 50(7):1054-1059. PubMed ID: 29915429
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Structural Variant Detection from Long-Read Sequencing Data with cuteSV.
    Jiang T; Liu S; Cao S; Wang Y
    Methods Mol Biol; 2022; 2493():137-151. PubMed ID: 35751813
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Graph Peak Caller: Calling ChIP-seq peaks on graph-based reference genomes.
    Grytten I; Rand KD; Nederbragt AJ; Storvik GO; Glad IK; Sandve GK
    PLoS Comput Biol; 2019 Feb; 15(2):e1006731. PubMed ID: 30779737
    [TBL] [Abstract][Full Text] [Related]  

  • 16. A variant selection framework for genome graphs.
    Jain C; Tavakoli N; Aluru S
    Bioinformatics; 2021 Jul; 37(Suppl_1):i460-i467. PubMed ID: 34252945
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Pangenome graphs in infectious disease: a comprehensive genetic variation analysis of
    Yang Z; Guarracino A; Biggs PJ; Black MA; Ismail N; Wold JR; Merriman TR; Prins P; Garrison E; de Ligt J
    Front Genet; 2023; 14():1225248. PubMed ID: 37636268
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Systematic benchmark of ancient DNA read mapping.
    Oliva A; Tobler R; Cooper A; Llamas B; Souilmi Y
    Brief Bioinform; 2021 Sep; 22(5):. PubMed ID: 33834210
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Chaining for accurate alignment of erroneous long reads to acyclic variation graphs.
    Ma J; Cáceres M; Salmela L; Mäkinen V; Tomescu AI
    Bioinformatics; 2023 Aug; 39(8):. PubMed ID: 37494467
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Indexing Graphs for Path Queries with Applications in Genome Research.
    Sirén J; Välimäki N; Mäkinen V
    IEEE/ACM Trans Comput Biol Bioinform; 2014; 11(2):375-88. PubMed ID: 26355784
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 10.