Splicing-aware scRNA-Seq resolution reveals execution-ready programs in effector Tregs
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14740%2F25%3A00143904" target="_blank" >RIV/00216224:14740/25:00143904 - isvavai.cz</a>
Result on the web
<a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1013682" target="_blank" >https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1013682</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1371/journal.pcbi.1013682" target="_blank" >10.1371/journal.pcbi.1013682</a>
Alternative languages
Result language
angličtina
Original language name
Splicing-aware scRNA-Seq resolution reveals execution-ready programs in effector Tregs
Original language description
Single-cell RNA sequencing (scRNA-Seq) provides valuable insights into cell biology. However, current scRNA-Seq analytic approaches do not distinguish between spliced and unspliced mRNA at the level of dimensionality reduction. RNA velocity paradigms suggest that the presence of unspliced mRNA reflects transitional cell states, informative for studies of dynamic processes such as embryogenesis or tissue regeneration. Alternatively, stable cell subsets may also maintain translationally repressed spliced mRNA in processing bodies (P-bodies) and/or unspliced mRNA reservoirs for prompt initiation of transcription-independent expression. To enable splicing-aware analysis of scRNA-Seq data, we developed a method called SANSARA (Splicing-Aware scrNa-Seq AppRoAch). We employed SANSARA to characterize peripheral blood regulatory T cell (Treg) subsets, revealing a complementary interplay between the FoxP3 and Helios master transcription factors and upregulation of functionally relevant IL10RA, LGALS3, FCRL3, CD38, ITGAL, and LEF1 spliced gene forms in effector Tregs. Among Th1 and cytotoxic CD4+ T cell subsets, SANSARA also revealed substantial splicing heterogeneity across subset-specific genes. SANSARA is straightforward to implement in current data analysis pipelines and opens new dimensions for scRNA-Seq-based discoveries.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10608 - Biochemistry and molecular biology
Result continuities
Project
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Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2025
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Plos Computational Biology
ISSN
1553-734X
e-ISSN
1553-7358
Volume of the periodical
21
Issue of the periodical within the volume
11
Country of publishing house
US - UNITED STATES
Number of pages
17
Pages from-to
1-17
UT code for WoS article
001611256300002
EID of the result in the Scopus database
2-s2.0-105023069535