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 *

278 related articles for article (PubMed ID: 39082646)

  • 1. Solving genomic puzzles: computational methods for metagenomic binning.
    Mallawaarachchi V; Wickramarachchi A; Xue H; Papudeshi B; Grigson SR; Bouras G; Prahl RE; Kaphle A; Verich A; Talamantes-Becerra B; Dinsdale EA; Edwards RA
    Brief Bioinform; 2024 Jul; 25(5):. PubMed ID: 39082646
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Accurate Binning of Metagenomic Contigs Using Composition, Coverage, and Assembly Graphs.
    Mallawaarachchi V; Lin Y
    J Comput Biol; 2022 Dec; 29(12):1357-1376. PubMed ID: 36367700
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Accurate binning of metagenomic contigs via automated clustering sequences using information of genomic signatures and marker genes.
    Lin HH; Liao YC
    Sci Rep; 2016 Apr; 6():24175. PubMed ID: 27067514
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Evaluating metagenomics tools for genome binning with real metagenomic datasets and CAMI datasets.
    Yue Y; Huang H; Qi Z; Dou HM; Liu XY; Han TF; Chen Y; Song XJ; Zhang YH; Tu J
    BMC Bioinformatics; 2020 Jul; 21(1):334. PubMed ID: 32723290
    [TBL] [Abstract][Full Text] [Related]  

  • 5. ICoVeR - an interactive visualization tool for verification and refinement of metagenomic bins.
    Broeksema B; Calusinska M; McGee F; Winter K; Bongiovanni F; Goux X; Wilmes P; Delfosse P; Ghoniem M
    BMC Bioinformatics; 2017 May; 18(1):233. PubMed ID: 28464793
    [TBL] [Abstract][Full Text] [Related]  

  • 6. CoMet: a workflow using contig coverage and composition for binning a metagenomic sample with high precision.
    Herath D; Tang SL; Tandon K; Ackland D; Halgamuge SK
    BMC Bioinformatics; 2017 Dec; 18(Suppl 16):571. PubMed ID: 29297295
    [TBL] [Abstract][Full Text] [Related]  

  • 7. HiFine: integrating Hi-C-based and shotgun-based methods to refine binning of metagenomic contigs.
    Du Y; Sun F
    Bioinformatics; 2022 May; 38(11):2973-2979. PubMed ID: 35482530
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Metagenomics Bioinformatic Pipeline.
    Garfias-Gallegos D; Zirión-Martínez C; Bustos-Díaz ED; Arellano-Fernández TV; Lovaco-Flores JA; Espinosa-Jaime A; Avelar-Rivas JA; Sélem-Mójica N
    Methods Mol Biol; 2022; 2512():153-179. PubMed ID: 35818005
    [TBL] [Abstract][Full Text] [Related]  

  • 9. GraphBin: refined binning of metagenomic contigs using assembly graphs.
    Mallawaarachchi V; Wickramarachchi A; Lin Y
    Bioinformatics; 2020 Jun; 36(11):3307-3313. PubMed ID: 32167528
    [TBL] [Abstract][Full Text] [Related]  

  • 10. MetaWRAP-a flexible pipeline for genome-resolved metagenomic data analysis.
    Uritskiy GV; DiRuggiero J; Taylor J
    Microbiome; 2018 Sep; 6(1):158. PubMed ID: 30219103
    [TBL] [Abstract][Full Text] [Related]  

  • 11. MBMC: An Effective Markov Chain Approach for Binning Metagenomic Reads from Environmental Shotgun Sequencing Projects.
    Wang Y; Hu H; Li X
    OMICS; 2016 Aug; 20(8):470-9. PubMed ID: 27447888
    [TBL] [Abstract][Full Text] [Related]  

  • 12. A novel abundance-based algorithm for binning metagenomic sequences using l-tuples.
    Wu YW; Ye Y
    J Comput Biol; 2011 Mar; 18(3):523-34. PubMed ID: 21385052
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Evaluating
    Vosloo S; Huo L; Anderson CL; Dai Z; Sevillano M; Pinto A
    Microbiol Spectr; 2021 Dec; 9(3):e0143421. PubMed ID: 34730411
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Alignment-free visualization of metagenomic data by nonlinear dimension reduction.
    Laczny CC; Pinel N; Vlassis N; Wilmes P
    Sci Rep; 2014 Mar; 4():4516. PubMed ID: 24682077
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Selection of marker genes for genetic barcoding of microorganisms and binning of metagenomic reads by Barcoder software tools.
    Rotimi AM; Pierneef R; Reva ON
    BMC Bioinformatics; 2018 Aug; 19(1):309. PubMed ID: 30165813
    [TBL] [Abstract][Full Text] [Related]  

  • 16. BugSplit enables genome-resolved metagenomics through highly accurate taxonomic binning of metagenomic assemblies.
    Chandrakumar I; Gauthier NPG; Nelson C; Bonsall MB; Locher K; Charles M; MacDonald C; Krajden M; Manges AR; Chorlton SD
    Commun Biol; 2022 Feb; 5(1):151. PubMed ID: 35194141
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Improving contig binning of metagenomic data using [Formula: see text] oligonucleotide frequency dissimilarity.
    Wang Y; Wang K; Lu YY; Sun F
    BMC Bioinformatics; 2017 Sep; 18(1):425. PubMed ID: 28931373
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Classification of metagenomic sequences: methods and challenges.
    Mande SS; Mohammed MH; Ghosh TS
    Brief Bioinform; 2012 Nov; 13(6):669-81. PubMed ID: 22962338
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics.
    Sedlar K; Kupkova K; Provaznik I
    Comput Struct Biotechnol J; 2017; 15():48-55. PubMed ID: 27980708
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Recovering complete and draft population genomes from metagenome datasets.
    Sangwan N; Xia F; Gilbert JA
    Microbiome; 2016 Mar; 4():8. PubMed ID: 26951112
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 14.