Dynast: Inclusive and efficient quantification of metabolically labeled transcripts in single cells

Single cell RNA velocity, defined as the time derivative of gene expression, is a powerful concept that can predict the future transcriptional state of the cell. Traditionally, RNA velocity estimations relied on the distinction between spliced and unspliced mRNA in single cell RNA-seq (scRNA-seq) data, resulting in noisy and biased approximations. Recent advancements in metabolic labeling enabled the direct, unbiased measurement of nascent RNA, yielding significantly improved RNA velocity estimates. However, there is still a lack of a standardized computational framework to process these data. This study introduces Dynast, a pipeline to comprehensively and efficiently quantify metabolically labeled and splicing transcripts from high-throughput metabolic labeling-enabled scRNA-seq.

Name thesis:degree_name

Master

Department dc:contributor.department

Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science

Grantor dc:publisher

Massachusetts Institute of Technology

Year dc:date.issued

2022

Author dc:creator

• Min, Kyung Hoi (Joseph)

Advisor dc:contributor.advisor

• Weissman, Jonathan S.

Statement dc:rights

• In Copyright - Educational Use Permitted
• Copyright MIT

Licence dc:rights.uri

• http://rightsstatements.org/page/InC-EDU/1.0/

Handle dc:identifier.uri

https://hdl.handle.net/1721.1/147475

OAI identifier oai:identifier

oai:dspace.mit.edu:1721.1/147475