181 related articles for article (PubMed ID: 25525895)
1. Inconsistent Denoising and Clustering Algorithms for Amplicon Sequence Data.
Koskinen K; Auvinen P; Björkroth KJ; Hultman J
J Comput Biol; 2015 Aug; 22(8):743-51. PubMed ID: 25525895
[TBL] [Abstract][Full Text] [Related]
2. 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]
3. 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]
4. MCaVoH: A toolkit for mining, classification and visualization of human microbiota.
Nisar M; Noureen N; Fazal S; Qadir MA
J Microbiol Methods; 2015 Oct; 117():28-35. PubMed ID: 26193336
[TBL] [Abstract][Full Text] [Related]
5. OTUs and ASVs Produce Comparable Taxonomic and Diversity from Shrimp Microbiota 16S Profiles Using Tailored Abundance Filters.
García-López R; Cornejo-Granados F; Lopez-Zavala AA; Cota-Huízar A; Sotelo-Mundo RR; Gómez-Gil B; Ochoa-Leyva A
Genes (Basel); 2021 Apr; 12(4):. PubMed ID: 33924545
[TBL] [Abstract][Full Text] [Related]
6. Ironing out the wrinkles in the rare biosphere through improved OTU clustering.
Huse SM; Welch DM; Morrison HG; Sogin ML
Environ Microbiol; 2010 Jul; 12(7):1889-98. PubMed ID: 20236171
[TBL] [Abstract][Full Text] [Related]
7. A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis.
Whelan FJ; Surette MG
Microbiome; 2017 Aug; 5(1):100. PubMed ID: 28807046
[TBL] [Abstract][Full Text] [Related]
8. Decontamination of 16S rRNA gene amplicon sequence datasets based on bacterial load assessment by qPCR.
Lazarevic V; Gaïa N; Girard M; Schrenzel J
BMC Microbiol; 2016 Apr; 16():73. PubMed ID: 27107811
[TBL] [Abstract][Full Text] [Related]
9. From reads to operational taxonomic units: an ensemble processing pipeline for MiSeq amplicon sequencing data.
Mysara M; Njima M; Leys N; Raes J; Monsieurs P
Gigascience; 2017 Feb; 6(2):1-10. PubMed ID: 28369460
[TBL] [Abstract][Full Text] [Related]
10. Comparing clustering and pre-processing in taxonomy analysis.
Bonder MJ; Abeln S; Zaura E; Brandt BW
Bioinformatics; 2012 Nov; 28(22):2891-7. PubMed ID: 22962346
[TBL] [Abstract][Full Text] [Related]
11. IPED: a highly efficient denoising tool for Illumina MiSeq Paired-end 16S rRNA gene amplicon sequencing data.
Mysara M; Leys N; Raes J; Monsieurs P
BMC Bioinformatics; 2016 Apr; 17(1):192. PubMed ID: 27130479
[TBL] [Abstract][Full Text] [Related]
12. HmmUFOtu: An HMM and phylogenetic placement based ultra-fast taxonomic assignment and OTU picking tool for microbiome amplicon sequencing studies.
Zheng Q; Bartow-McKenney C; Meisel JS; Grice EA
Genome Biol; 2018 Jun; 19(1):82. PubMed ID: 29950165
[TBL] [Abstract][Full Text] [Related]
13. MICCA: a complete and accurate software for taxonomic profiling of metagenomic data.
Albanese D; Fontana P; De Filippo C; Cavalieri D; Donati C
Sci Rep; 2015 May; 5():9743. PubMed ID: 25988396
[TBL] [Abstract][Full Text] [Related]
14. Distribution-based clustering: using ecology to refine the operational taxonomic unit.
Preheim SP; Perrotta AR; Martin-Platero AM; Gupta A; Alm EJ
Appl Environ Microbiol; 2013 Nov; 79(21):6593-603. PubMed ID: 23974136
[TBL] [Abstract][Full Text] [Related]
15. 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]
16. 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]
17. Updating the 97% identity threshold for 16S ribosomal RNA OTUs.
Edgar RC
Bioinformatics; 2018 Jul; 34(14):2371-2375. PubMed ID: 29506021
[TBL] [Abstract][Full Text] [Related]
18. A critical analysis of state-of-the-art metagenomics OTU clustering algorithms.
Bhat AH; Prabhu P; Balakrishnan K
J Biosci; 2019 Dec; 44(6):. PubMed ID: 31894129
[TBL] [Abstract][Full Text] [Related]
19. LotuS: an efficient and user-friendly OTU processing pipeline.
Hildebrand F; Tadeo R; Voigt AY; Bork P; Raes J
Microbiome; 2014 Sep; 2(1):30. PubMed ID: 27367037
[TBL] [Abstract][Full Text] [Related]
20. Characterization of the Rat Gut Microbiota via 16S rRNA Amplicon Library Sequencing.
Ericsson AC; Busi SB; Amos-Landgraf JM
Methods Mol Biol; 2019; 2018():195-212. PubMed ID: 31228158
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
