Hello,
Thank you for developing such a useful tool. I wanted to leverage its capabilities in my research. A few questions:
Through reciprocal matings, I bred two distinct mouse lines to produce offspring. I sequenced the genomes of both parent mice, creating a comprehensive database of Single Nucleotide Polymorphisms (SNPs). Subsequently, I isolated fibroblasts from the offspring that inherited known SNPs from their parents. Employing single-cell RNA sequencing (scRNA-seq) on these cell lines, my focus lies in identifying allele-specific expressed genes or imprinted genes within this scRNA-seq dataset using your program. Could you please provide guidance on the optimal approach to integrate my SNP and scRNA-seq data into your tool for this specific purpose? Is it possible to use vcf file from both parents together?
Hello, Thank you for developing such a useful tool. I wanted to leverage its capabilities in my research. A few questions:
Through reciprocal matings, I bred two distinct mouse lines to produce offspring. I sequenced the genomes of both parent mice, creating a comprehensive database of Single Nucleotide Polymorphisms (SNPs). Subsequently, I isolated fibroblasts from the offspring that inherited known SNPs from their parents. Employing single-cell RNA sequencing (scRNA-seq) on these cell lines, my focus lies in identifying allele-specific expressed genes or imprinted genes within this scRNA-seq dataset using your program. Could you please provide guidance on the optimal approach to integrate my SNP and scRNA-seq data into your tool for this specific purpose? Is it possible to use vcf file from both parents together?
Thank you