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TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data.
Song, Li; Cohen, David; Ouyang, Zhangyi; Cao, Yang; Hu, Xihao; Liu, X Shirley.
Afiliación
  • Song L; Department of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.
  • Cohen D; Harvard T.H. Chan School of Public Health, Boston, MA, USA.
  • Ouyang Z; Department of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.
  • Cao Y; Department of Biotechnology, Beijing Institue of Radiation Medicine, Beijing, China.
  • Hu X; College of Life Sciences, Sichuan University, Chengdu, China.
  • Liu XS; Department of Data Science, Dana-Farber Cancer Institute, Boston, MA, USA.
Nat Methods ; 18(6): 627-630, 2021 06.
Article en En | MEDLINE | ID: mdl-33986545
ABSTRACT
We introduce the TRUST4 open-source algorithm for reconstruction of immune receptor repertoires in αß/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.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Algoritmos / Receptores Inmunológicos / Análisis de Secuencia de ARN / Análisis de la Célula Individual Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2021 Tipo del documento: Article País de afiliación: Estados Unidos
Texto completo
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Algoritmos / Receptores Inmunológicos / Análisis de Secuencia de ARN / Análisis de la Célula Individual Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2021 Tipo del documento: Article País de afiliación: Estados Unidos