Similar articles for PMID: 39880590

Year	Number of Results
2018	1
2019	8
2020	11
2021	15
2022	9
2023	15
2024	37
2025	17
2026	0

1

Rapid and accurate demultiplexing of direct RNA nanopore sequencing data with SeqTagger.

Pryszcz LP, Diensthuber G, Llovera L, Medina R, Delgado-Tejedor A, Cozzuto L, Ponomarenko J, Novoa EM. Pryszcz LP, et al. Genome Res. 2025 Apr 14;35(4):956-966. doi: 10.1101/gr.279290.124. Genome Res. 2025. PMID: 39880590 Free PMC article.

2

Molecular barcoding of native RNAs using nanopore sequencing and deep learning.

Smith MA, Ersavas T, Ferguson JM, Liu H, Lucas MC, Begik O, Bojarski L, Barton K, Novoa EM. Smith MA, et al. Genome Res. 2020 Sep;30(9):1345-1353. doi: 10.1101/gr.260836.120. Epub 2020 Sep 9. Genome Res. 2020. PMID: 32907883 Free PMC article.

3

Demultiplexing and barcode-specific adaptive sampling for nanopore direct RNA sequencing.

van der Toorn W, Bohn P, Liu-Wei W, Olguin-Nava M, Gribling-Burrer AS, Smyth RP, von Kleist M. van der Toorn W, et al. Nat Commun. 2025 Apr 21;16(1):3742. doi: 10.1038/s41467-025-59102-9. Nat Commun. 2025. PMID: 40258808 Free PMC article.

4

Nanopore Direct RNA Sequencing Data Processing and Analysis Using MasterOfPores.

Cozzuto L, Delgado-Tejedor A, Hermoso Pulido T, Novoa EM, Ponomarenko J. Cozzuto L, et al. Methods Mol Biol. 2023;2624:185-205. doi: 10.1007/978-1-0716-2962-8_13. Methods Mol Biol. 2023. PMID: 36723817

5

Nanopore guided annotation of transcriptome architectures.

Abebe JS, Alwie Y, Fuhrmann E, Leins J, Mai J, Verstraten R, Schreiner S, Wilson AC, Depledge DP. Abebe JS, et al. mSystems. 2024 Jul 23;9(7):e0050524. doi: 10.1128/msystems.00505-24. Epub 2024 Jul 2. mSystems. 2024. PMID: 38953320 Free PMC article.

6

DEMINERS enables clinical metagenomics and comparative transcriptomic analysis by increasing throughput and accuracy of nanopore direct RNA sequencing.

Song J, Lin LA, Tang C, Chen C, Yang Q, Zhang D, Zhao Y, Wei HC, Linghu K, Xu Z, Chen T, He Z, Liu D, Zhong Y, Zhu W, Zeng W, Chen L, Song G, Chen M, Jiang J, Zhou J, Wang J, Chen B, Ying B, Wang Y, Geng J, Lin JW, Chen L. Song J, et al. Genome Biol. 2025 Mar 28;26(1):76. doi: 10.1186/s13059-025-03536-3. Genome Biol. 2025. PMID: 40155949 Free PMC article.

7

Transfer learning enables identification of multiple types of RNA modifications using nanopore direct RNA sequencing.

Wu Y, Shao W, Yan M, Wang Y, Xu P, Huang G, Li X, Gregory BD, Yang J, Wang H, Yu X. Wu Y, et al. Nat Commun. 2024 May 14;15(1):4049. doi: 10.1038/s41467-024-48437-4. Nat Commun. 2024. PMID: 38744925 Free PMC article.

8

Leveraging basecaller's move table to generate a lightweight k-mer model for nanopore sequencing analysis.

Samarakoon H, Wan YK, Parameswaran S, Göke J, Gamaarachchi H, Deveson IW. Samarakoon H, et al. Bioinformatics. 2025 Mar 29;41(4):btaf111. doi: 10.1093/bioinformatics/btaf111. Bioinformatics. 2025. PMID: 40085000 Free PMC article.

9

Quantitative analysis of tRNA abundance and modifications by nanopore RNA sequencing.

Lucas MC, Pryszcz LP, Medina R, Milenkovic I, Camacho N, Marchand V, Motorin Y, Ribas de Pouplana L, Novoa EM. Lucas MC, et al. Nat Biotechnol. 2024 Jan;42(1):72-86. doi: 10.1038/s41587-023-01743-6. Epub 2023 Apr 6. Nat Biotechnol. 2024. PMID: 37024678 Free PMC article.

10

NanoTrans: an integrated computational framework for comprehensive transcriptome analysis with nanopore direct RNA sequencing.

Yang L, Zhang X, Wang F, Zhang L, Li J, Yue JX. Yang L, et al. J Genet Genomics. 2024 Nov;51(11):1300-1309. doi: 10.1016/j.jgg.2024.07.007. Epub 2024 Jul 14. J Genet Genomics. 2024. PMID: 39004399 Free article.

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