The DOI matches its Crossref record; 48 of the 48 references it cites were found in a registry or an index.
Characterizing Expression and Processing of Precursor and Mature Human tRNAs by Hydro-tRNAseq and PAR-CLIP
Open accessAbstract
The participation of tRNAs in fundamental aspects of biology and disease necessitates an accurate, experimentally confirmed annotation of tRNA genes and curation of tRNA sequences. This has been challenging because RNA secondary structure, nucleotide modifications, and tRNA gene multiplicity complicate sequencing and mapping efforts. To address these issues, we developed hydro-tRNAseq, a method based on partial alkaline RNA hydrolysis that generates fragments amenable for sequencing. To identify transcribed tRNA genes, we further complemented this approach with photoactivatable crosslinking and immunoprecipitation (PAR-CLIP) of SSB/La, a conserved protein involved in pre-tRNA processing. Our results show that approximately half of all predicted tRNA genes are transcribed in human cells. We also report nucleotide modification sites and their order of introduction, and we identify tRNA leaders, trailers, and introns. By using complementary sequencing-based methodologies, we present a human tRNA atlas and determine expression levels of mature and processing intermediates of tRNAs in human cells.
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“More recently, high-throughput tRNA-specific sequencing techniques have also been developed.”
From Role of host tRNAs and aminoacyl-tRNA synthetases in retroviral replication (2019) · cites this paper as [140]
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“A hydrolysis-based tRNA sequencing method further allowed detection of tRNA precursors (140).”
From Role of host tRNAs and aminoacyl-tRNA synthetases in retroviral replication (2019) · cites this paper as [140]
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Synonymous but not the same: the causes and consequences of codon bias
Plotkin, J. B., & Kudla, G. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2899 · Cited by 1,733
The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts
Baltz, A. G., Munschauer, M., Schwanhäußer, B., Vasile, A. I., Murakawa, Y., Schueler, M., Youngs, N., Penfold-Brown, D., Drew, K., Milek, M., et al. (2012) · Molecular Cell · doi:10.1016/j.molcel.2012.05.021 · Cited by 1,215
A novel class of small RNAs: tRNA-derived RNA fragments (tRFs)
Lee, Y. S., Shibata, Y., Malhotra, A., & Dutta, A. (2009) · Genes & Development · doi:10.1101/gad.1837609 · Cited by 1,173
MODOMICS: a database of RNA modification pathways—2013 update
Machnicka, M. A., Milanowska, K., Oglou, O. O., Purta, E., Kurkowska, M., Olchowik, A., Januszewski, W., Kalinowski, S., Dunin-Horkawicz, S., Rother, K. M., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1007 · Cited by 1,003
Angiogenin-Induced tRNA Fragments Inhibit Translation Initiation
Ivanov, P. V., Emara, M. M., Villén, J., Gygi, S. P., & Anderson, P. (2011) · Molecular Cell · doi:10.1016/j.molcel.2011.06.022 · Cited by 986
An evolutionarily conserved mechanism for controlling the efficiency of protein translation
Tuller, T., Carmi, A., Vestsigian, K., Navon, S., Dorfan, Y., Zaborske, J., Pan, T., Dahan, O., Furman, I., & Pilpel, Y. (2010) · Cell · doi:10.1016/j.cell.2010.03.031 · Cited by 874
tRNAdb 2009: compilation of tRNA sequences and tRNA genes
Jühling, F., Mörl, M., Hartmann, R. K., Sprinzl, M., Stadler, P. F., & Pütz, J. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn772 · Cited by 872
tRNA biology charges to the frontPreprint
Phizicky, E. M., & Hopper, A. K. (2010) · Genes & Development · doi:10.1101/gad.1956510 · Cited by 764
Efficient and quantitative high-throughput tRNA sequencing
Zheng, G., Qin, Y., Clark, W. C., Dai, Q., Yi, C., He, C., Lambowitz, A. M., & Pan, T. (2015) · Nature Methods · doi:10.1038/nmeth.3478 · Cited by 550
A Dual Program for Translation Regulation in Cellular Proliferation and Differentiation
Gingold, H., Tehler, D., Christoffersen, N. R., Nielsen, M. M., Asmar, F., Kooistra, S. M., Christophersen, N. S., Christensen, L. L., Borre, M., Sørensen, K. D., et al. (2014) · Cell · doi:10.1016/j.cell.2014.08.011 · Cited by 513
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Unmasking the modified small non-coding RNome: detection strategies for RNA modifications
Henzeler, B., Halter, K., Simsir, Ö., Giehr, P., & Schneider, S. (2026) · Biological Chemistry · doi:10.1515/hsz-2026-0148
Sanchez, A. V., Gallardo-Dodd, C. J., Li, Q., Gao, W., Ringnér, M., & Kutter, C. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.09.08.750101
The dark transcriptome mouse organogenesis cell atlasPreprint
Liu, M., Zhang, D., Li, K., Kluger, Y., Lü, J., Gerstein, M., Li, H., & Fan, R. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.06.756869
Mudgal, R. K., Thornhill, D., Chou, K.-N., Qureshi, H., & Ono, A. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.16.759769
FAIRsharing record for: T-psi-C
FAIRsharing Team, & Sajek, M. (2018) · FAIRsharing.org · doi:10.25504/fairsharing.83jovl
Metadata
- Authors
- Gogakos, T., Brown, M., Garzia, A., Meyer, C., Hafner, M., & Tuschl, T.
- Affiliations
- Howard Hughes Medical Institute (US)
- National Institute of Arthritis and Musculoskeletal and Skin Diseases (US)
- Corresponding author
- Tuschl, Thomas
- Venue
- Cell Reports
- Publisher
- Elsevier BV
- Published
- 2017-08
- Volume
- 20
- Issue
- 6
- Pages
- 1463-1475
- ISSN
- 2211-1247 (ISSN-L)
- PMC
- PMC5564215
- OpenAlex
- W2742715352
- Cited by
- 209
- References
- 48
- Citations by year
- 2026: 14 · 2025: 24 · 2024: 17 · 2023: 27 · 2022: 21 · 2021: 31 · 2020: 24 · 2019: 39 · 2018: 9 · 2017: 3
- FWCI
- 8.49
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Cell Reports (publishedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- NIH (TRA R01CA159227)
- Weill Cornell/Rockefeller/Sloan-Kettering MD/PhD Program
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA modifications and cancer
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- tRNA, tRNA processing, PAR-CLIP, pre-tRNA processing, RNA secondary structure, nucleotide modification, tRNA introns, tRNA expression, human cells
- MeSH terms
- Humans, RNA Processing, Post-Transcriptional, RNA, Transfer, Sequence Analysis, RNA, HEK293 Cells
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