323 related articles for article (PubMed ID: 33961223)
21. Towards a balanced view of the bacterial tree of life.
Schulz F; Eloe-Fadrosh EA; Bowers RM; Jarett J; Nielsen T; Ivanova NN; Kyrpides NC; Woyke T
Microbiome; 2017 Oct; 5(1):140. PubMed ID: 29041958
[TBL] [Abstract][Full Text] [Related]
22. Development of a Single Locus Sequence Typing (SLST) Scheme for Typing Bacterial Species Directly from Complex Communities.
Scholz CF; Jensen A
Methods Mol Biol; 2017; 1535():97-107. PubMed ID: 27914075
[TBL] [Abstract][Full Text] [Related]
23. Metagenome-assembled genome extraction and analysis from microbiomes using KBase.
Chivian D; Jungbluth SP; Dehal PS; Wood-Charlson EM; Canon RS; Allen BH; Clark MM; Gu T; Land ML; Price GA; Riehl WJ; Sneddon MW; Sutormin R; Zhang Q; Cottingham RW; Henry CS; Arkin AP
Nat Protoc; 2023 Jan; 18(1):208-238. PubMed ID: 36376589
[TBL] [Abstract][Full Text] [Related]
24. PacBio-Based Protocol for Bacterial Genome Assembly.
Motyka-Pomagruk A; Zoledowska S; Kabza M; Lojkowska E
Methods Mol Biol; 2021; 2242():3-14. PubMed ID: 33961214
[TBL] [Abstract][Full Text] [Related]
25. MetaMeta: integrating metagenome analysis tools to improve taxonomic profiling.
Piro VC; Matschkowski M; Renard BY
Microbiome; 2017 Aug; 5(1):101. PubMed ID: 28807044
[TBL] [Abstract][Full Text] [Related]
26. Large-scale quality assessment of prokaryotic genomes with metashot/prok-quality.
Albanese D; Donati C
F1000Res; 2021; 10():822. PubMed ID: 35136576
[TBL] [Abstract][Full Text] [Related]
27. MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy.
Rocha U; Coelho Kasmanas J; Kallies R; Saraiva JP; Toscan RB; Štefanič P; Bicalho MF; Borim Correa F; Baştürk MN; Fousekis E; Viana Barbosa LM; Plewka J; Probst AJ; Baldrian P; Stadler PF;
Mol Ecol Resour; 2024 Feb; 24(2):e13904. PubMed ID: 37994269
[TBL] [Abstract][Full Text] [Related]
28. Computational Framework for High-Quality Production and Large-Scale Evolutionary Analysis of Metagenome Assembled Genomes.
Murovec B; Deutsch L; Stres B
Mol Biol Evol; 2020 Feb; 37(2):593-598. PubMed ID: 31633780
[TBL] [Abstract][Full Text] [Related]
29. Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery.
Stewart RD; Auffret MD; Warr A; Walker AW; Roehe R; Watson M
Nat Biotechnol; 2019 Aug; 37(8):953-961. PubMed ID: 31375809
[TBL] [Abstract][Full Text] [Related]
30. DOE JGI Metagenome Workflow.
Clum A; Huntemann M; Bushnell B; Foster B; Foster B; Roux S; Hajek PP; Varghese N; Mukherjee S; Reddy TBK; Daum C; Yoshinaga Y; O'Malley R; Seshadri R; Kyrpides NC; Eloe-Fadrosh EA; Chen IA; Copeland A; Ivanova NN
mSystems; 2021 May; 6(3):. PubMed ID: 34006627
[TBL] [Abstract][Full Text] [Related]
31. Assembly and Annotation of Viral Metagenomes from Short-Read Sequencing Data.
Mangalea MR; Keift K; Duerkop BA; Anantharaman K
Methods Mol Biol; 2023; 2649():317-337. PubMed ID: 37258871
[TBL] [Abstract][Full Text] [Related]
32. Ray Meta: scalable de novo metagenome assembly and profiling.
Boisvert S; Raymond F; Godzaridis E; Laviolette F; Corbeil J
Genome Biol; 2012 Dec; 13(12):R122. PubMed ID: 23259615
[TBL] [Abstract][Full Text] [Related]
33. Integrating taxonomic signals from MAGs and contigs improves read annotation and taxonomic profiling of metagenomes.
Hauptfeld E; Pappas N; van Iwaarden S; Snoek BL; Aldas-Vargas A; Dutilh BE; von Meijenfeldt FAB
Nat Commun; 2024 Apr; 15(1):3373. PubMed ID: 38643272
[TBL] [Abstract][Full Text] [Related]
34. dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication.
Olm MR; Brown CT; Brooks B; Banfield JF
ISME J; 2017 Dec; 11(12):2864-2868. PubMed ID: 28742071
[TBL] [Abstract][Full Text] [Related]
35. TAMA: improved metagenomic sequence classification through meta-analysis.
Sim M; Lee J; Lee D; Kwon D; Kim J
BMC Bioinformatics; 2020 May; 21(1):185. PubMed ID: 32397982
[TBL] [Abstract][Full Text] [Related]
36. 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]
37. The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes.
Meyer F; Paarmann D; D'Souza M; Olson R; Glass EM; Kubal M; Paczian T; Rodriguez A; Stevens R; Wilke A; Wilkening J; Edwards RA
BMC Bioinformatics; 2008 Sep; 9():386. PubMed ID: 18803844
[TBL] [Abstract][Full Text] [Related]
38. SprayNPray: user-friendly taxonomic profiling of genome and metagenome contigs.
Garber AI; Armbruster CR; Lee SE; Cooper VS; Bomberger JM; McAllister SM
BMC Genomics; 2022 Mar; 23(1):202. PubMed ID: 35279076
[TBL] [Abstract][Full Text] [Related]
39. A human gut bacterial genome and culture collection for improved metagenomic analyses.
Forster SC; Kumar N; Anonye BO; Almeida A; Viciani E; Stares MD; Dunn M; Mkandawire TT; Zhu A; Shao Y; Pike LJ; Louie T; Browne HP; Mitchell AL; Neville BA; Finn RD; Lawley TD
Nat Biotechnol; 2019 Feb; 37(2):186-192. PubMed ID: 30718869
[TBL] [Abstract][Full Text] [Related]
40. uBin: A manual refining tool for genomes from metagenomes.
Bornemann TLV; Esser SP; Stach TL; Burg T; Probst AJ
Environ Microbiol; 2023 Jun; 25(6):1077-1083. PubMed ID: 36764661
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
