The staff have extensive knowledge and experience with the various platforms and can provide flexibility in project planning and implementation.
For questions about these services or to discuss your project, please email IHGSeqCore@ucsf.edu and our research specialists will respond promptly.
See our Pricing page
Single Cell RNA-sequencing
10x Genomics Chromium technology partitions cells into nanoliter-scale Gel Bead-In-Emulsions (GEMs) which contain uniquely barcoded beads.
Our Single Cell RNA-sequencing service includes partitioning single cells on the Chromium Controller, generating libraries from the cDNA, and sequencing on the NovaSeq. We can run Single Cell Gene Expression, Single Cell Immune Profiling, and Single Cell ATAC. Complimentary sequencing data in fastq format and output files from the 10x software will be provided. Please contact us for a detailed quote and to discuss your experiment.
Vendor: 10x Genomics
Whole Exome Sequencing
LIBRARY PREPARATION: Construction of libraries for Next-Generation Sequencing
We can build a customized project for you based on our consultant rate and pass-through supplies. Please contact us at the email below.
The genomic DNA is sheared by the Covaris LE220 to a target insert size of ~350bp and assembled into a library constructed with unique dual indexes which are compatible with the NovaSeq.
To capture the protein coding region of the human genome
Libraries are pooled into a capture reaction that contains biotinylated oligonucleotide probes to target specific regions of interest. The biotinylated probe/target hybrids are pulled down by streptavidin-coated magnetic beads to obtain libraries highly enriched for the target regions.
DATA PROCESSING & ANALYSIS
Complimentary sequencing data will be provided in the fastq format. Under certain circumstances, sequence alignment to a reference genome and variant calling can be provided for an additional charge. Consultation for the clinical genomic variant is also available for an additional charge. All additional services are subjected to availability. Please contact us for further information.
NovaSeq 6000: Next-generation sequencing (NGS) for RNA-seq, whole genome, whole exome, and targeted DNA sequencing
We offer sequencing runs on the SP, S1, S2, and S4 flow cells. Please contact us for a detailed quote.
HiSeq 2500: We offer sequencing runs on the High-Output or Rapid flow cells.
Applied Biosystems Axiom Genotyping
Genotyping of single nucleotide polymorphisms (SNPs) and insertions/deletions (indels), targeted structural genomic variants, such as small intragenic deletions and duplications, and the detection of microbial organisms.
We perform large-scale genotyping assays using the Beckman Coulter Biomek FxP Target Prep Express and the Applied Biosystems GeneTitan Multi-Channel Instrument. We can run most 96-well Axiom array plates.
Vendor: Thermo Fisher Scientific
Our DNA extraction service prepares high-quality DNA samples from blood (up to 10 ml) and saliva. The DNA samples will be returned to you for storage, processing, or shipment to collaborators.
Please email us at IHGSeqCore@ucsf.edu to set up a one-on-one free consultation to discuss your project.
High Performance Computing & Data Storage
Learn about our HPC & Data Storage services