Contribution of specific cell types to the development of Barrett’s esophagus and carcinoma via germline genetic risk

This study was designed to elucidate how individual cell types in Barrett’s esophagus (BE) and esophageal adenocarcinoma (EAC) contribute to disease development via germline genetic risk. We performed single cell RNA-sequencing (scRNA-seq) of BE, EAC and paired normal esophagus and gastric fundus tissue samples. After analyzing individual cell types, we integrated the scRNA-seq data and data of a genome-wide association study (GWAS) on BE/EAC to determine cell type-specific genetic risk. Raw data from the RNA-sequencing is provided here.

Type: Transcriptome Analysis
Archiver: European Genome-Phenome Archive (EGA)

3 Datasets

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Dataset ID	Description	Technology	Samples
EGAD50000000751	This dataset contains single cell protein tag sequencing of EAC samples by 10x Genomics CITE-seq. Total number of files - 24. File format - FASTQ.	Illumina NovaSeq 6000	12
EGAD50000000752	This dataset contains single cell RNA-sequencing of EAC samples by 10x Genomics. Total number of files - 24. File format - FASTQ.	Illumina NovaSeq 6000	12
EGAD50000000753	This dataset contains single cell RNA-sequencing of BE samples by 10x Genomics. Total number of files - 28. File format - FASTQ.	Illumina NovaSeq 6000	14