南方科技大学知识苑(SUSTech KC): SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis

题名	SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis
作者	Ye，Haocheng 1,2; Cheng，Lin 1; Ju，Bin 1; Xu，Gang 1; Liu，Yang1 ; Zhang，Shuye 3; Wang，Lifei 4; Zhang，Zheng 1
发表日期	2021-09-28
DOI	10.1093/gigascience/giab050
发表期刊	GigaScience 影响因子和分区
EISSN	2047-217X
卷号	10 期号:9
摘要	BACKGROUND: B-cell immunoglobulin repertoires with paired heavy and light chain can be determined by means of 10X single-cell V(D)J sequencing. Precise and quick analysis of 10X single-cell immunoglobulin repertoires remains a challenge owing to the high diversity of immunoglobulin repertoires and a lack of specialized software that can analyze such diverse data. FINDINGS: In this study, specialized software for 10X single-cell immunoglobulin repertoire analysis was developed. SCIGA (Single-Cell Immunoglobulin Repertoire Analysis) is an easy-to-use pipeline that performs read trimming, immunoglobulin sequence assembly and annotation, heavy and light chain pairing, statistical analysis, visualization, and multiple sample integration analysis, which is all achieved by using a 1-line command. Then SCIGA was used to profile the single-cell immunoglobulin repertoires of 9 patients with coronavirus disease 2019 (COVID-19). Four neutralizing antibodies against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) were identified from these repertoires. CONCLUSIONS: SCIGA provides a complete and quick analysis for 10X single-cell V(D)J sequencing datasets. It can help researchers to interpret B-cell immunoglobulin repertoires with paired heavy and light chain.
关键词	antibody COVID-19 immunoglobulin repertoires single-cell software
相关链接	[Scopus记录]
收录类别	SCI
语种	英语
学校署名	第一
WOS记录号	WOS:000708517600001
Scopus记录号	2-s2.0-85117272581
来源库	Scopus
引用统计	被引频次[WOS]：0
成果类型	期刊论文
条目标识符	http://sustech.caswiz.com/handle/2SGJ60CL/254247
专题	南方科技大学医学院南方科技大学第二附属医院
作者单位	1.Institute for Hepatology,National Clinical Research Center for Infectious Disease,Shenzhen Third People's Hospital,Second Affiliated Hospital,School of Medicine,Southern University of Science and Technology,Shenzhen,518112,China 2.CAS Key Laboratory of Pathogenic Microbiology and Immunology,Institute of Microbiology,Chinese Academy of Sciences (CAS),100101,China 3.Shanghai Public Health Clinical Center,Fudan University,201508,China 4.Department of Radiology,National Clinical Research Center for Infectious Disease,Third People's Hospital,Second Affiliated Hospital,School of Medicine,Southern University of Science and Technology,Shenzhen,518112,China
第一作者单位	南方科技大学医学院; 南方科技大学第二附属医院
第一作者的第一单位	南方科技大学医学院; 南方科技大学第二附属医院
推荐引用方式 GB/T 7714	Ye，Haocheng,Cheng，Lin,Ju，Bin,et al. SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis[J]. GigaScience,2021,10(9).
APA	Ye，Haocheng.,Cheng，Lin.,Ju，Bin.,Xu，Gang.,Liu，Yang.,...&Zhang，Zheng.(2021).SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis.GigaScience,10(9).
MLA	Ye，Haocheng,et al."SCIGA: Software for large-scale, single-cell immunoglobulin repertoire analysis".GigaScience 10.9(2021).