Whole Genome Sequencing

The GRCF High Throughput Sequencing Center now offers whole genome sequencing on the NovaSeq 6000.

Human genome sequencing at 30x average coverage, from short-insert paired-end reads using a single library.


Sample Requirements	Input DNA amount: 1ug high molecular weight genomic DNA for PCR free (preferred), 500ng for PCR based methods
Deliverables	Genomic coverage at a minimum of 30x GATK best practice called sequence variants: (SNPS, CNV’s, small indel) multisample calling (if applicable) Annotation of SNPs and indels in VCF format (dbSNP, gene, exon, transcript) Concordance with whole-genome genotyping arrays Raw data (reads and quality scores) and analyzed data in industry-standard format (archival BAM)
Pricing	$1500/genome, highly dependent upon sample number

10X linked read whole genome sequencing at 30x average coverage, from 10X GemCode library, short-insert paired-end reads.


Sample Requirements	Input DNA amount: 1.2ng high molecular weight genomic DNA (>50Kb minimum)
Deliverables	Genomic coverage at a minimum of 30x Whole Genome Phasing and SV calling via 10X Longranger Pipeline SNP/short indel calls using GATK/Freebayes Concordance with whole-genome genotyping arrays Annotation of SNPs and indels in VCF format (dbSNP, gene, exon, transcript) Raw data (reads and quality scores) and analyzed data in industry-standard format (archival BAM). Loupe browser file
Pricing	$3000/genome, highly dependent upon sample number

We also offer de novo whole genome assembly using 10X linked reads. Please inquire if interested, as pricing depends on genome size and complexity.