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Systematic assessment of long-read RNA-seq methods for transcript identification and quantification.
Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez JM, Hunt T, Lagarde J, Liang CE, Li H, Jerryd Meade M, Moraga Amador DA, Prjibelski AD, Birol I, Bostan H, Brooks AM, Hasan Çelik M, Chen Y, Du MRM, Felton C, Göke J, Hafezqorani S, Herwig R, Kawaji H, Lee J, Liang Li J, Lienhard M, Mikheenko A, Mulligan D, Ming Nip K, Pertea M, Ritchie ME, Sim AD, Tang AD, Kei Wan Y, Wang C, Wong BY, Yang C, Barnes I, Berry A, Capella S, Dhillon N, Fernandez-Gonzalez JM, Ferrández-Peral L, Garcia-Reyero N, Goetz S, Hernández-Ferrer C, Kondratova L, Liu T, Martinez-Martin A, Menor C, Mestre-Tomás J, Mudge JM, Panayotova NG, Paniagua A, Repchevsky D, Rouchka E, Saint-John B, Sapena E, Sheynkman L, Laird Smith M, Suner MM, Takahashi H, Youngworth IA, Carninci P, Denslow ND, Guigó R, Hunter ME, Tilgner HU, Wold BJ, Vollmers C, Frankish A, Fai Au K, Sheynkman GM, Mortazavi A, Conesa A, Brooks AN. Pardo-Palacios FJ, et al. Among authors: vollmers c. bioRxiv [Preprint]. 2023 Jul 27:2023.07.25.550582. doi: 10.1101/2023.07.25.550582. bioRxiv. 2023. Update in: Nat Methods. 2024 Jul;21(7):1349-1363. doi: 10.1038/s41592-024-02298-3 PMID: 37546854 Free PMC article. Updated. Preprint.
R2C2+UMI: Combining concatemeric consensus sequencing with unique molecular identifiers enables ultra-accurate sequencing of amplicons on Oxford Nanopore Technologies sequencers.
Deng DZQ, Verhage J, Neudorf C, Corbett-Detig R, Mekonen H, Castaldi PJ, Vollmers C. Deng DZQ, et al. Among authors: vollmers c. bioRxiv [Preprint]. 2023 Aug 21:2023.08.19.553937. doi: 10.1101/2023.08.19.553937. bioRxiv. 2023. Update in: PNAS Nexus. 2024 Aug 21;3(9):pgae336. doi: 10.1093/pnasnexus/pgae336 PMID: 37662385 Free PMC article. Updated. Preprint.
The Circadian Isoform Landscape of Mouse Livers.
Zee A, Deng DZQ, DiTacchio L, Vollmers C. Zee A, et al. Among authors: vollmers c. bioRxiv [Preprint]. 2024 Oct 18:2024.10.16.618716. doi: 10.1101/2024.10.16.618716. bioRxiv. 2024. PMID: 39464136 Free PMC article. Preprint.
61 results