1430 related articles for article (PubMed ID: 25957349)
1. Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data.
Aßhauer KP; Wemheuer B; Daniel R; Meinicke P
Bioinformatics; 2015 Sep; 31(17):2882-4. PubMed ID: 25957349
[TBL] [Abstract][Full Text] [Related]
2. Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics.
Shah N; Tang H; Doak TG; Ye Y
Pac Symp Biocomput; 2011; ():165-76. PubMed ID: 21121044
[TBL] [Abstract][Full Text] [Related]
3. Comparison of two bioinformatics tools used to characterize the microbial diversity and predictive functional attributes of microbial mats from Lake Obersee, Antarctica.
Koo H; Hakim JA; Morrow CD; Eipers PG; Davila A; Andersen DT; Bej AK
J Microbiol Methods; 2017 Sep; 140():15-22. PubMed ID: 28655556
[TBL] [Abstract][Full Text] [Related]
4. Inference-based accuracy of metagenome prediction tools varies across sample types and functional categories.
Sun S; Jones RB; Fodor AA
Microbiome; 2020 Apr; 8(1):46. PubMed ID: 32241293
[TBL] [Abstract][Full Text] [Related]
5. VITCOMIC2: visualization tool for the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing.
Mori H; Maruyama T; Yano M; Yamada T; Kurokawa K
BMC Syst Biol; 2018 Mar; 12(Suppl 2):30. PubMed ID: 29560821
[TBL] [Abstract][Full Text] [Related]
6. 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]
7. Reconstructing 16S rRNA genes in metagenomic data.
Yuan C; Lei J; Cole J; Sun Y
Bioinformatics; 2015 Jun; 31(12):i35-43. PubMed ID: 26072503
[TBL] [Abstract][Full Text] [Related]
8. PanFP: pangenome-based functional profiles for microbial communities.
Jun SR; Robeson MS; Hauser LJ; Schadt CW; Gorin AA
BMC Res Notes; 2015 Sep; 8():479. PubMed ID: 26409790
[TBL] [Abstract][Full Text] [Related]
9. MarkerMAG: linking metagenome-assembled genomes (MAGs) with 16S rRNA marker genes using paired-end short reads.
Song W; Zhang S; Thomas T
Bioinformatics; 2022 Aug; 38(15):3684-3688. PubMed ID: 35713513
[TBL] [Abstract][Full Text] [Related]
10. Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences.
Langille MG; Zaneveld J; Caporaso JG; McDonald D; Knights D; Reyes JA; Clemente JC; Burkepile DE; Vega Thurber RL; Knight R; Beiko RG; Huttenhower C
Nat Biotechnol; 2013 Sep; 31(9):814-21. PubMed ID: 23975157
[TBL] [Abstract][Full Text] [Related]
11. RiboTagger: fast and unbiased 16S/18S profiling using whole community shotgun metagenomic or metatranscriptome surveys.
Xie C; Goi CL; Huson DH; Little PF; Williams RB
BMC Bioinformatics; 2016 Dec; 17(Suppl 19):508. PubMed ID: 28155666
[TBL] [Abstract][Full Text] [Related]
12. Comparison of reduced metagenome and 16S rRNA gene sequencing for determination of genetic diversity and mother-child overlap of the gut associated microbiota.
Ravi A; Avershina E; Angell IL; Ludvigsen J; Manohar P; Padmanaban S; Nachimuthu R; Snipen L; Rudi K
J Microbiol Methods; 2018 Jun; 149():44-52. PubMed ID: 29501688
[TBL] [Abstract][Full Text] [Related]
13. 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]
14. Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy.
Zhu Q; Huang S; Gonzalez A; McGrath I; McDonald D; Haiminen N; Armstrong G; Vázquez-Baeza Y; Yu J; Kuczynski J; Sepich-Poore GD; Swafford AD; Das P; Shaffer JP; Lejzerowicz F; Belda-Ferre P; Havulinna AS; Méric G; Niiranen T; Lahti L; Salomaa V; Kim HC; Jain M; Inouye M; Gilbert JA; Knight R
mSystems; 2022 Apr; 7(2):e0016722. PubMed ID: 35369727
[TBL] [Abstract][Full Text] [Related]
15. Ultrafast and accurate 16S rRNA microbial community analysis using Kraken 2.
Lu J; Salzberg SL
Microbiome; 2020 Aug; 8(1):124. PubMed ID: 32859275
[TBL] [Abstract][Full Text] [Related]
16. Piphillin: Improved Prediction of Metagenomic Content by Direct Inference from Human Microbiomes.
Iwai S; Weinmaier T; Schmidt BL; Albertson DG; Poloso NJ; Dabbagh K; DeSantis TZ
PLoS One; 2016; 11(11):e0166104. PubMed ID: 27820856
[TBL] [Abstract][Full Text] [Related]
17. Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences.
Liu B; Gibbons T; Ghodsi M; Treangen T; Pop M
BMC Genomics; 2011; 12 Suppl 2(Suppl 2):S4. PubMed ID: 21989143
[TBL] [Abstract][Full Text] [Related]
18. Microbial community profiling of fresh basil and pitfalls in taxonomic assignment of enterobacterial pathogenic species based upon 16S rRNA amplicon sequencing.
Ceuppens S; De Coninck D; Bottledoorn N; Van Nieuwerburgh F; Uyttendaele M
Int J Food Microbiol; 2017 Sep; 257():148-156. PubMed ID: 28666129
[TBL] [Abstract][Full Text] [Related]
19. Measuring metagenome diversity and similarity with Hill numbers.
Ma ZS; Li L
Mol Ecol Resour; 2018 Nov; 18(6):1339-1355. PubMed ID: 29985552
[TBL] [Abstract][Full Text] [Related]
20. Bioinformatics for NGS-based metagenomics and the application to biogas research.
Jünemann S; Kleinbölting N; Jaenicke S; Henke C; Hassa J; Nelkner J; Stolze Y; Albaum SP; Schlüter A; Goesmann A; Sczyrba A; Stoye J
J Biotechnol; 2017 Nov; 261():10-23. PubMed ID: 28823476
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]