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Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing
Published on: March 15, 2019
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SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis.
Haocheng Ye1,2, Lin Cheng1, Bin Ju1
1Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People's Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology, Shenzhen, Guangdong 518112, China.
Gigascience
|September 29, 2021
Summary
A new software, SCIGA, enables rapid analysis of B-cell immunoglobulin repertoires from 10X single-cell V(D)J sequencing data. This tool aids in identifying specific antibodies, such as those neutralizing SARS-CoV-2.
Area of Science:
- Immunology
- Bioinformatics
- Genomics
Background:
- 10X single-cell V(D)J sequencing allows determination of B-cell immunoglobulin repertoires.
- Analyzing the high diversity of these repertoires is challenging due to a lack of specialized software.
Purpose of the Study:
- To develop specialized software for efficient 10X single-cell immunoglobulin repertoire analysis.
- To facilitate the interpretation of paired heavy and light chain B-cell immunoglobulin repertoires.
Main Methods:
- Developed SCIGA (Single-Cell Immunoglobulin Repertoire Analysis) pipeline.
- SCIGA automates read trimming, sequence assembly, annotation, heavy/light chain pairing, statistical analysis, and visualization.
- Integrated multiple sample analysis using a single command.
Main Results:
- SCIGA successfully profiled single-cell immunoglobulin repertoires from 9 COVID-19 patients.
- Identified four neutralizing antibodies against SARS-CoV-2 from the analyzed repertoires.
Conclusions:
- SCIGA offers a complete and rapid analysis solution for 10X single-cell V(D)J sequencing datasets.
- The software assists researchers in interpreting complex B-cell immunoglobulin repertoires.
