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For: Luo X, Kang X, Schönhuth A. Enhancing Long-Read-Based Strain-Aware Metagenome Assembly. Front Genet 2022;13:868280. [PMID: 35646097 PMCID: PMC9136235 DOI: 10.3389/fgene.2022.868280] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Accepted: 04/01/2022] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Liu Y, Li Y, Chen E, Xu J, Zhang W, Zeng X, Luo X. Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat. Commun Biol 2024;7:1678. [PMID: 39702496 DOI: 10.1038/s42003-024-07376-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2024] [Accepted: 12/05/2024] [Indexed: 12/21/2024]  Open
2
Agustinho DP, Fu Y, Menon VK, Metcalf GA, Treangen TJ, Sedlazeck FJ. Unveiling microbial diversity: harnessing long-read sequencing technology. Nat Methods 2024;21:954-966. [PMID: 38689099 PMCID: PMC11955098 DOI: 10.1038/s41592-024-02262-1] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 03/29/2024] [Indexed: 05/02/2024]
3
Wattanasombat S, Tongjai S. Easing genomic surveillance: A comprehensive performance evaluation of long-read assemblers across multi-strain mixture data of HIV-1 and Other pathogenic viruses for constructing a user-friendly bioinformatic pipeline. F1000Res 2024;13:556. [PMID: 38984017 PMCID: PMC11231628 DOI: 10.12688/f1000research.149577.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 05/14/2024] [Indexed: 07/11/2024]  Open
4
Jaudou S, Deneke C, Tran ML, Salzinger C, Vorimore F, Goehler A, Schuh E, Malorny B, Fach P, Grützke J, Delannoy S. Exploring Long-Read Metagenomics for Full Characterization of Shiga Toxin-Producing Escherichia coli in Presence of Commensal E. coli. Microorganisms 2023;11:2043. [PMID: 37630603 PMCID: PMC10458860 DOI: 10.3390/microorganisms11082043] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Revised: 07/26/2023] [Accepted: 08/07/2023] [Indexed: 08/27/2023]  Open
5
Eco-evolutionary implications of helminth microbiomes. J Helminthol 2023;97:e22. [PMID: 36790127 DOI: 10.1017/s0022149x23000056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/16/2023]
6
Metagenomic nanopore sequencing versus conventional diagnosis for identification of the dieback pathogens of mango trees. Biotechniques 2022;73:261-272. [DOI: 10.2144/btn-2022-0087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]  Open
7
VeChat: correcting errors in long reads using variation graphs. Nat Commun 2022;13:6657. [PMID: 36333324 PMCID: PMC9636371 DOI: 10.1038/s41467-022-34381-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Accepted: 10/24/2022] [Indexed: 11/06/2022]  Open
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