FIPRESCI
FIPRESCI performs 5'-end single-cell combinatorial indexing RNA sequencing to profile transcript 5'-ends, promoter and enhancer activities, and immune receptor repertoires at ultra-high throughput.
Key Features:
- Combinatorial Indexing: Employs combinatorial indexing to enable extensive sample multiplexing.
- Droplet Microfluidics Integration: Integrates with droplet microfluidic systems and increases throughput more than tenfold.
- Massive-Scale Throughput: Generates approximately 100,000 single-cell transcriptomes in a single-channel experiment.
- Simultaneous Analysis: Enables concurrent identification of subpopulation differences and T cell receptor signatures.
Scientific Applications:
- Developmental Biology: Profiles whole mouse embryos at embryonic day 10.5 (E10.5) to study early developmental processes at single-cell resolution.
- Immunology: Profiles immune receptor repertoires and T cell receptor diversity, exemplified by analysis of peripheral blood T cells from 12 cancer patients.
Methodology:
Combines combinatorial indexing with droplet microfluidics to perform ultra-high-throughput 5'-end single-cell RNA sequencing.
Topics
Details
- License:
- MIT
- Cost:
- Free of charge
- Tool Type:
- command-line tool
- Operating Systems:
- Mac, Linux, Windows
- Programming Languages:
- R, Shell, Python
- Added:
- 11/10/2023
- Last Updated:
- 11/24/2024
Operations
Publications
Li Y, Huang Z, Zhang Z, Wang Q, Li F, Wang S, Ji X, Shu S, Fang X, Jiang L. FIPRESCI: droplet microfluidics based combinatorial indexing for massive-scale 5′-end single-cell RNA sequencing. Genome Biology. 2023;24(1). doi:10.1186/s13059-023-02893-1. PMID:37024957. PMCID:PMC10078054.
Li Y, Huang Z, Zhang Z, Wang Q, Li F, Wang S, Ji X, Shu S, Fang X, Jiang L. Publisher Correction: FIPRESCI: droplet microfluidics based combinatorial indexing for massive-scale 5′-end single-cell RNA sequencing. Genome Biology. 2023;24(1). doi:10.1186/s13059-023-02944-7. PMID:37085832. PMCID:PMC10122391.