478 related articles for article (PubMed ID: 28369460)
1. 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]
2. 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]
3. 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]
4. Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences.
Narayan NR; Weinmaier T; Laserna-Mendieta EJ; Claesson MJ; Shanahan F; Dabbagh K; Iwai S; DeSantis TZ
BMC Genomics; 2020 Jan; 21(1):56. PubMed ID: 31952477
[TBL] [Abstract][Full Text] [Related]
5. CDSnake: Snakemake pipeline for retrieval of annotated OTUs from paired-end reads using CD-HIT utilities.
Kondratenko Y; Korobeynikov A; Lapidus A
BMC Bioinformatics; 2020 Jul; 21(Suppl 12):303. PubMed ID: 32703166
[TBL] [Abstract][Full Text] [Related]
6. A novel conceptual approach to read-filtering in high-throughput amplicon sequencing studies.
Puente-Sánchez F; Aguirre J; Parro V
Nucleic Acids Res; 2016 Feb; 44(4):e40. PubMed ID: 26553806
[TBL] [Abstract][Full Text] [Related]
7. Impact of DNA Sequencing and Analysis Methods on 16S rRNA Gene Bacterial Community Analysis of Dairy Products.
Xue Z; Kable ME; Marco ML
mSphere; 2018 Oct; 3(5):. PubMed ID: 30333179
[TBL] [Abstract][Full Text] [Related]
8. Improved pipeline for reducing erroneous identification by 16S rRNA sequences using the Illumina MiSeq platform.
Jeon YS; Park SC; Lim J; Chun J; Kim BS
J Microbiol; 2015 Jan; 53(1):60-9. PubMed ID: 25557481
[TBL] [Abstract][Full Text] [Related]
9. 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]
10. A comparison of sequencing platforms and bioinformatics pipelines for compositional analysis of the gut microbiome.
Allali I; Arnold JW; Roach J; Cadenas MB; Butz N; Hassan HM; Koci M; Ballou A; Mendoza M; Ali R; Azcarate-Peril MA
BMC Microbiol; 2017 Sep; 17(1):194. PubMed ID: 28903732
[TBL] [Abstract][Full Text] [Related]
11. Analysis of 16S rRNA Gene Amplicon Sequences Using the QIIME Software Package.
Lawley B; Tannock GW
Methods Mol Biol; 2017; 1537():153-163. PubMed ID: 27924593
[TBL] [Abstract][Full Text] [Related]
12. Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing.
Prodan A; Tremaroli V; Brolin H; Zwinderman AH; Nieuwdorp M; Levin E
PLoS One; 2020; 15(1):e0227434. PubMed ID: 31945086
[TBL] [Abstract][Full Text] [Related]
13. NoDe: a fast error-correction algorithm for pyrosequencing amplicon reads.
Mysara M; Leys N; Raes J; Monsieurs P
BMC Bioinformatics; 2015 Mar; 16(1):88. PubMed ID: 25888405
[TBL] [Abstract][Full Text] [Related]
14. Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering.
Franzén O; Hu J; Bao X; Itzkowitz SH; Peter I; Bashir A
Microbiome; 2015 Oct; 3():43. PubMed ID: 26434730
[TBL] [Abstract][Full Text] [Related]
15. Systematic processing of ribosomal RNA gene amplicon sequencing data.
Tremblay J; Yergeau E
Gigascience; 2019 Dec; 8(12):. PubMed ID: 31816087
[TBL] [Abstract][Full Text] [Related]
16. A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform.
de Muinck EJ; Trosvik P; Gilfillan GD; Hov JR; Sundaram AYM
Microbiome; 2017 Jul; 5(1):68. PubMed ID: 28683838
[TBL] [Abstract][Full Text] [Related]
17. 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]
18. A bioinformatics pipeline integrating predictive metagenomics profiling for the analysis of 16S rDNA/rRNA sequencing data originated from foods.
Mataragas M; Alessandria V; Ferrocino I; Rantsiou K; Cocolin L
Food Microbiol; 2018 Dec; 76():279-286. PubMed ID: 30166151
[TBL] [Abstract][Full Text] [Related]
19. Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics.
Siegwald L; Touzet H; Lemoine Y; Hot D; Audebert C; Caboche S
PLoS One; 2017; 12(1):e0169563. PubMed ID: 28052134
[TBL] [Abstract][Full Text] [Related]
20. BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons.
Djemiel C; Dequiedt S; Karimi B; Cottin A; Girier T; El Djoudi Y; Wincker P; Lelièvre M; Mondy S; Chemidlin Prévost-Bouré N; Maron PA; Ranjard L; Terrat S
BMC Bioinformatics; 2020 Oct; 21(1):492. PubMed ID: 33129268
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
