Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Interference of B-Cell and T-Cell Receptor Genes in Single-Cell RNA Sequencing Data

ABSTRACT: B and T cells play central roles in immune responses and, as such, are integral in many diseases, such as autoimmunity. Characterizing these cells, their subsets, and exploring their transcriptomes to understand the underlying biology, can be achieved using single-cell RNA sequencing (scRNA-seq). While some studies report removing the transcripts encoding the variable regions of the B- and T-cell antigen receptors prior to downstream analyses, a systematic analysis of the effects of retaining versus removing these genes has been lacking. We investigated the effects these transcripts in B and T cells impose on supervised clustering and downstream analyses of scRNA-seq data.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Homo sapiens

SUBMITTER: Inga-Lill Mårtensson

PROVIDER: E-MTAB-12346 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Single-cell RNA sequencing analyses: interference by the genes that encode the B-cell and T-cell receptors.

Sundell Timothy T Grimstad Kristoffer K Camponeschi Alessandro A Tilevik Andreas A Gjertsson Inger I Mårtensson Inga-Lill IL

Briefings in functional genomics 20221206

B and T cells are integral parts of the immune system and are implicated in many diseases, e.g. autoimmunity. Towards understanding the biology of B and T cells and subsets thereof, their transcriptomes can be analyzed using single-cell RNA sequencing. In some studies, the V(D)J transcripts encoding the variable regions of the B- and T-cell antigen receptors have been removed before the analyses. However, a systematic analysis of the effects of including versus excluding these genes is currently ...[more]

PMID: 36473726

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Dataset Information

Interference of B-Cell and T-Cell Receptor Genes in Single-Cell RNA Sequencing Data

Publications

Single-cell RNA sequencing analyses: interference by the genes that encode the B-cell and T-cell receptors.

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