TARGET-seq+ genotyping data

Genotyping data for TARGET-seq+ from bone marrow samples from 9 cases with clonal hematopoiesis and 1 control sample.
For each mutation and each single cell, data are provided for the genomic DNA amplicon (".gDNA"), the mRNA/cDNA amplicon (".mRNA"; if present) and the heterozygous germline SNP ("SNP."; if present). Where multiple mutations were amplified in a single cell, data for these are shown in separate lines.
Genotypes were called separately for the genomic DNA amplicon ("genotype.gDNA"), and the mRNA/cDNA amplicon ("genotype.mRNA"). Zygosity was called for heterozygous SNPs where these were present in the amplicon.
The final column indicates the consensus cell genotype for that mutation, integrating information from gDNA, mRNA and heterozygous SNPs.
Column descriptionsCell = Cell ID
Sample = Donor ID
Sample_type = Type of sample; CH = clonal haematopoiesis sample; WT_control = non-CH wild-type control sample; No_template_control = empty well control
Plate = Plate ID
mutation = mutation amplified
coverage.gDNA = total coverage of locus in gDNA amplicon
Ref.gDNA = reference allele count in gDNA amplicon
Mut.gDNA = mutant allele count in gDNA amplicon
VAF.gDNA = variant allele frequency in gDNA amplicon
genotype.gDNA = genotype called in gDNA amplicon
coverage.mRNA = total coverage of locus in mRNA amplicon
Ref.mRNA = reference allele count in mRNA amplicon
Mut.mRNA = mutant allele count in mRNA amplicon
VAF.mRNA = variant allele frequency in mRNA amplicon
genotype.mRNA = genotype called in mRNA amplicon
SNP = Name of the germline SNP (if present) found near the mutation locus, covered by the gDNA amplicon
SNP.coverage = total coverage across the SNP in the gDNA amplicon
SNP.ref = reference allele count for the SNP
SNP.alt = alternate allele count for the SNP
SNP.VAF = variant allele frequency for the SNP (alternate allele)
SNP.genotype = genotype called for the SNP; Het = Heterozygous biallelic detection; Hom_Ref = homozygous reference; Hom_Alt = homozygous alternate
genotype = consensus genotype