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Peer-reviewedLicence not statedNature Methods

StringTie3 improves total RNA-seq assembly by resolving nascent and mature transcripts

  • Ida Shinder1,2,3,4
  • Geo M. Pertea5,6
  • Richard Hu7,8,3,4
  • Zoe Rudnick7,9,3,4,10
  • Mihaela Pertea11,12,13,14,3,10,15
15 affiliations
  1. 1Center for Computational Biology, Johns Hopkins University, Baltimore, MD, USA. [email protected]
  2. 2Cross Disciplinary Graduate Program in Biomedical Sciences, Johns Hopkins School of Medicine, Baltimore, MD, USA. [email protected]
  3. 3Baltimore, MD, United States
  4. 4Center for Computational Biology, Johns Hopkins University
  5. 5Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA
  6. 6Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, United States
  7. 7Center for Computational Biology, Johns Hopkins University, Baltimore, MD, USA
  8. 8Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA
  9. 9Department of Biomedical Engineering, Johns Hopkins School of Medicine and Whiting School of Engineering, Baltimore, MD, USA
  10. 10Department of Biomedical Engineering, Johns Hopkins School of Medicine and Whiting School of Engineering
  11. 11Center for Computational Biology, Johns Hopkins University, Baltimore, MD, USA. [email protected]
  12. 12Department of Biomedical Engineering, Johns Hopkins School of Medicine and Whiting School of Engineering, Baltimore, MD, USA. [email protected]
  13. 13Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA. [email protected]
  14. 14Department of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, MD, USA. [email protected]
  15. 15Department of Computer Science, Johns Hopkins University
Open at sourceDOICite

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Cite

BibTeXRIS
BibTeX
@article{shinder2026stringtie3,
  title = {{StringTie3 improves total RNA-seq assembly by resolving nascent and mature transcripts}},
  author = {Ida Shinder and Geo M. Pertea and Richard Hu and Zoe Rudnick and Mihaela Pertea},
  journal = {Nature Methods},
  year = {2026},
  month = may,
  doi = {10.1038/s41592-026-03080-3},
  url = {https://doi.org/10.1101/2025.05.21.655404},
}
RIS
TY  - JOUR
TI  - StringTie3 improves total RNA-seq assembly by resolving nascent and mature transcripts
AU  - Ida Shinder
AU  - Geo M. Pertea
AU  - Richard Hu
AU  - Zoe Rudnick
AU  - Mihaela Pertea
PY  - 2026
DA  - 2026/05/19
JO  - Nature Methods
DO  - 10.1038/s41592-026-03080-3
UR  - https://doi.org/10.1101/2025.05.21.655404
SN  - 1548-7091
SN  - 1548-7105
ER  -