Measuring transcription factor binding and gene expression using barcoded self-reporting transposon calling cards and transcriptomes.

ABSTRACT: Calling cards technology using self-reporting transposons enables the identification of DNA-protein interactions through RNA sequencing. Although immensely powerful, current implementations of calling cards in bulk experiments on populations of cells are technically cumbersome and require many replicates to identify independent insertions into the same genomic locus. Here, we have drastically reduced the cost and labor requirements of calling card experiments in bulk populations of cells by introducing a DNA barcode into the calling card itself. An additional barcode incorporated during reverse transcription enables simultaneous transcriptome measurement in a facile and affordable protocol. We demonstrate that barcoded self-reporting transposons recover in vitro binding sites for fo

SUBMITTER: Lalli M 

PROVIDER: S-EPMC9428926 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature