TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data
Rashid Khan
1, 2
,
David Cohen
1
,
Zhangyi Ouyang
3
,
Yang Cao
4
,
Xihao Hu
1, 2
,
X. Shirley Liu
1, 2, 5
3
Department of Biotechnology, Beijing Institue of Radiation Medicine, Beijing, China
|
Publication type: Journal Article
Publication date: 2021-05-13
scimago Q1
wos Q1
SJR: 17.251
CiteScore: 49.0
Impact factor: 32.1
ISSN: 15487091, 15487105
PubMed ID:
33986545
Biochemistry
Molecular Biology
Cell Biology
Biotechnology
Abstract
We introduce the TRUST4 open-source algorithm for reconstruction of immune receptor repertoires in αβ/γδ T cells and B cells from RNA-sequencing (RNA-seq) data. Compared with competing methods, TRUST4 supports both FASTQ and BAM format and is faster and more sensitive in assembling longer—even full-length—receptor repertoires. TRUST4 can also call repertoire sequences from single-cell RNA-seq (scRNA-seq) data without V(D)J enrichment, and is compatible with both SMART-seq and 5′ 10x Genomics platforms. TRUST4 is a computational tool for reconstructing T-cell and B-cell receptor repertoires using bulk and single-cell RNA-seq data.
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Metrics
268
Total citations:
268
Citations from 2024:
166
(61.94%)
Cite this
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GOST
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Khan R. et al. TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data // Nature Methods. 2021. Vol. 18. No. 6. pp. 627-630.
GOST all authors (up to 50)
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Khan R., Cohen D., Ouyang Z., Cao Y., Hu X., Liu X. S. TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data // Nature Methods. 2021. Vol. 18. No. 6. pp. 627-630.
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RIS
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TY - JOUR
DO - 10.1038/s41592-021-01142-2
UR - https://doi.org/10.1038/s41592-021-01142-2
TI - TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data
T2 - Nature Methods
AU - Khan, Rashid
AU - Cohen, David
AU - Ouyang, Zhangyi
AU - Cao, Yang
AU - Hu, Xihao
AU - Liu, X. Shirley
PY - 2021
DA - 2021/05/13
PB - Springer Nature
SP - 627-630
IS - 6
VL - 18
PMID - 33986545
SN - 1548-7091
SN - 1548-7105
ER -
Cite this
BibTex (up to 50 authors)
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@article{2021_Khan,
author = {Rashid Khan and David Cohen and Zhangyi Ouyang and Yang Cao and Xihao Hu and X. Shirley Liu},
title = {TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data},
journal = {Nature Methods},
year = {2021},
volume = {18},
publisher = {Springer Nature},
month = {may},
url = {https://doi.org/10.1038/s41592-021-01142-2},
number = {6},
pages = {627--630},
doi = {10.1038/s41592-021-01142-2}
}
Cite this
MLA
Copy
Khan, Rashid, et al. “TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data.” Nature Methods, vol. 18, no. 6, May. 2021, pp. 627-630. https://doi.org/10.1038/s41592-021-01142-2.