BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

238 related articles for article (PubMed ID: 25995836)

  • 1. Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity.
    He Y; Caporaso JG; Jiang XT; Sheng HF; Huse SM; Rideout JR; Edgar RC; Kopylova E; Walters WA; Knight R; Zhou HW
    Microbiome; 2015; 3():20. PubMed ID: 25995836
    [TBL] [Abstract][Full Text] [Related]  

  • 2. De novo clustering methods outperform reference-based methods for assigning 16S rRNA gene sequences to operational taxonomic units.
    Westcott SL; Schloss PD
    PeerJ; 2015; 3():e1487. PubMed ID: 26664811
    [TBL] [Abstract][Full Text] [Related]  

  • 3. OptiFit: an Improved Method for Fitting Amplicon Sequences to Existing OTUs.
    Sovacool KL; Westcott SL; Mumphrey MB; Dotson GA; Schloss PD
    mSphere; 2022 Feb; 7(1):e0091621. PubMed ID: 35107341
    [TBL] [Abstract][Full Text] [Related]  

  • 4. OptiClust, an Improved Method for Assigning Amplicon-Based Sequence Data to Operational Taxonomic Units.
    Westcott SL; Schloss PD
    mSphere; 2017; 2(2):. PubMed ID: 28289728
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Accuracy of microbial community diversity estimated by closed- and open-reference OTUs.
    Edgar RC
    PeerJ; 2017; 5():e3889. PubMed ID: 29018622
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Nitrogen Cycling Microbial Diversity and Operational Taxonomic Unit Clustering: When to Prioritize Accuracy Over Speed.
    Egenriether S; Sanford R; Yang WH; Kent AD
    Front Microbiol; 2022; 13():730340. PubMed ID: 35722279
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Machine learning classification by fitting amplicon sequences to existing OTUs.
    Armour CR; Sovacool KL; Close WL; Topçuoğlu BD; Wiens J; Schloss PD
    mSphere; 2023 Oct; 8(5):e0033623. PubMed ID: 37615431
    [TBL] [Abstract][Full Text] [Related]  

  • 8. DBH: A de Bruijn graph-based heuristic method for clustering large-scale 16S rRNA sequences into OTUs.
    Wei ZG; Zhang SW
    J Theor Biol; 2017 Jul; 425():80-87. PubMed ID: 28454900
    [TBL] [Abstract][Full Text] [Related]  

  • 9. A heritability-based comparison of methods used to cluster 16S rRNA gene sequences into operational taxonomic units.
    Jackson MA; Bell JT; Spector TD; Steves CJ
    PeerJ; 2016; 4():e2341. PubMed ID: 27635321
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Assessing and improving methods used in operational taxonomic unit-based approaches for 16S rRNA gene sequence analysis.
    Schloss PD; Westcott SL
    Appl Environ Microbiol; 2011 May; 77(10):3219-26. PubMed ID: 21421784
    [TBL] [Abstract][Full Text] [Related]  

  • 11. MtHc: a motif-based hierarchical method for clustering massive 16S rRNA sequences into OTUs.
    Wei ZG; Zhang SW
    Mol Biosyst; 2015 Jul; 11(7):1907-13. PubMed ID: 25912934
    [TBL] [Abstract][Full Text] [Related]  

  • 12. A De Novo Robust Clustering Approach for Amplicon-Based Sequence Data.
    Bazin A; Debroas D; Mephu Nguifo E
    J Comput Biol; 2019 Jun; 26(6):618-624. PubMed ID: 30517025
    [No Abstract]   [Full Text] [Related]  

  • 13. DMSC: A Dynamic Multi-Seeds Method for Clustering 16S rRNA Sequences Into OTUs.
    Wei ZG; Zhang SW
    Front Microbiol; 2019; 10():428. PubMed ID: 30915052
    [TBL] [Abstract][Full Text] [Related]  

  • 14. bioOTU: An Improved Method for Simultaneous Taxonomic Assignments and Operational Taxonomic Units Clustering of 16s rRNA Gene Sequences.
    Chen SY; Deng F; Huang Y; Jia X; Liu YP; Lai SJ
    J Comput Biol; 2016 Apr; 23(4):229-38. PubMed ID: 26950196
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences.
    Rideout JR; He Y; Navas-Molina JA; Walters WA; Ursell LK; Gibbons SM; Chase J; McDonald D; Gonzalez A; Robbins-Pianka A; Clemente JC; Gilbert JA; Huse SM; Zhou HW; Knight R; Caporaso JG
    PeerJ; 2014; 2():e545. PubMed ID: 25177538
    [TBL] [Abstract][Full Text] [Related]  

  • 16. The effect of low-abundance OTU filtering methods on the reliability and variability of microbial composition assessed by 16S rRNA amplicon sequencing.
    Nikodemova M; Holzhausen EA; Deblois CL; Barnet JH; Peppard PE; Suen G; Malecki KM
    Front Cell Infect Microbiol; 2023; 13():1165295. PubMed ID: 37377642
    [TBL] [Abstract][Full Text] [Related]  

  • 17. A comparison of methods for clustering 16S rRNA sequences into OTUs.
    Chen W; Zhang CK; Cheng Y; Zhang S; Zhao H
    PLoS One; 2013; 8(8):e70837. PubMed ID: 23967117
    [TBL] [Abstract][Full Text] [Related]  

  • 18. hc-OTU: A Fast and Accurate Method for Clustering Operational Taxonomic Units Based on Homopolymer Compaction.
    Park S; Choi HS; Lee B; Chun J; Won JH; Yoon S
    IEEE/ACM Trans Comput Biol Bioinform; 2018; 15(2):441-451. PubMed ID: 26930691
    [TBL] [Abstract][Full Text] [Related]  

  • 19. A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity.
    Nguyen NP; Warnow T; Pop M; White B
    NPJ Biofilms Microbiomes; 2016; 2():16004. PubMed ID: 28721243
    [TBL] [Abstract][Full Text] [Related]  

  • 20. An independent evaluation in a CRC patient cohort of microbiome 16S rRNA sequence analysis methods: OTU clustering, DADA2, and Deblur.
    Liu G; Li T; Zhu X; Zhang X; Wang J
    Front Microbiol; 2023; 14():1178744. PubMed ID: 37560524
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 12.